kejian/codesearchnet-python-linelen40-full

text stringlengths 89 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 630
def max(self, axis=None, keepdims=False): """ Return the maximum of the array over the given axis. Parameters ---------- axis : tuple or int, optional, default=None Axis to compute statistic over, if None will compute over all axes keepdims : boo...	[ "def", "max", "(", "self", ",", "axis", "=", "None", ",", "keepdims", "=", "False", ")", ":", "from", "numpy", "import", "maximum", "return", "self", ".", "_stat", "(", "axis", ",", "func", "=", "maximum", ",", "keepdims", "=", "keepdims", ")" ]	33.8	15.4
def install(self, package): '''Install a python package using pip''' logger.debug('Installing ' + package) shell.run(self.pip_path, 'install', package)	[ "def", "install", "(", "self", ",", "package", ")", ":", "logger", ".", "debug", "(", "'Installing '", "+", "package", ")", "shell", ".", "run", "(", "self", ".", "pip_path", ",", "'install'", ",", "package", ")" ]	34.6	15.8
def ParseOptions(cls, options, output_module): """Parses and validates options. Args: options (argparse.Namespace): parser options. output_module (OutputModule): output module to configure. Raises: BadConfigObject: when the output module object does not have the SetCredentials ...	[ "def", "ParseOptions", "(", "cls", ",", "options", ",", "output_module", ")", ":", "if", "not", "hasattr", "(", "output_module", ",", "'SetCredentials'", ")", ":", "raise", "errors", ".", "BadConfigObject", "(", "'Unable to set username information.'", ")", "if", ...	40.037037	21.481481
def describe_availability_zones(self, xml_bytes): """Parse the XML returned by the C{DescribeAvailibilityZones} function. @param xml_bytes: XML bytes with a C{DescribeAvailibilityZonesResponse} root element. @return: a C{list} of L{AvailabilityZone}. TODO: regionName, messa...	[ "def", "describe_availability_zones", "(", "self", ",", "xml_bytes", ")", ":", "results", "=", "[", "]", "root", "=", "XML", "(", "xml_bytes", ")", "for", "zone_data", "in", "root", ".", "find", "(", "\"availabilityZoneInfo\"", ")", ":", "zone_name", "=", ...	40.125	18
def add_missing_price_information_message(request, item): """ Add a message to the Django messages store indicating that we failed to retrieve price information about an item. :param request: The current request. :param item: The item for which price information is missing. Example: a program title, or...	[ "def", "add_missing_price_information_message", "(", "request", ",", "item", ")", ":", "messages", ".", "warning", "(", "request", ",", "_", "(", "'{strong_start}We could not gather price information for {em_start}{item}{em_end}.{strong_end} '", "'{span_start}If you continue to hav...	42.75	27.178571
def get_trend(self): """ Get the trend for the last two metric values using the interval defined in the metric :return: a tuple with the metric value for the last interval and the trend percentage between the last two intervals """ """ """ # TODO: We j...	[ "def", "get_trend", "(", "self", ")", ":", "\"\"\" \"\"\"", "# TODO: We just need the last two periods, not the full ts", "ts", "=", "self", ".", "get_ts", "(", ")", "last", "=", "ts", "[", "'value'", "]", "[", "len", "(", "ts", "[", "'value'", "]", ")", "-...	31.28	19.12
async def get_contents(self, uri) -> List[Content]: """Request content listing recursively for the given URI. :param uri: URI for the source. :return: List of Content objects. """ contents = [ Content.make(**x) for x in await self.services["avContent"]["g...	[ "async", "def", "get_contents", "(", "self", ",", "uri", ")", "->", "List", "[", "Content", "]", ":", "contents", "=", "[", "Content", ".", "make", "(", "", "", "x", ")", "for", "x", "in", "await", "self", ".", "services", "[", "\"avContent\"", "...	36.666667	16.380952
def p_lvalue_partselect(self, p): 'lvalue : lpartselect' p[0] = Lvalue(p[1], lineno=p.lineno(1)) p.set_lineno(0, p.lineno(1))	[ "def", "p_lvalue_partselect", "(", "self", ",", "p", ")", ":", "p", "[", "0", "]", "=", "Lvalue", "(", "p", "[", "1", "]", ",", "lineno", "=", "p", ".", "lineno", "(", "1", ")", ")", "p", ".", "set_lineno", "(", "0", ",", "p", ".", "lineno", ...	36.5	7
def start_adc(self, channel, gain=1, data_rate=None): """Start continuous ADC conversions on the specified channel (0-3). Will return an initial conversion result, then call the get_last_result() function to read the most recent conversion result. Call stop_adc() to stop conversions. ...	[ "def", "start_adc", "(", "self", ",", "channel", ",", "gain", "=", "1", ",", "data_rate", "=", "None", ")", ":", "assert", "0", "<=", "channel", "<=", "3", ",", "'Channel must be a value within 0-3!'", "# Start continuous reads and set the mux value to the channel plu...	59.6	21.9
def qtable(columns, data, **meta): '''Creates a QTable out of given column names and data, and initialises the meta data. :class:`.QTable` is represented internally by `numpy.core.records.recarray`. Data for each column is converted to :class:`.QList` via :func:`.qlist` function. If qtype ind...	[ "def", "qtable", "(", "columns", ",", "data", ",", "", "", "meta", ")", ":", "if", "len", "(", "columns", ")", "!=", "len", "(", "data", ")", ":", "raise", "ValueError", "(", "'Number of columns doesn`t match the data layout. %s vs %s'", "%", "(", "len", ...	50.151163	33.662791
def explain_prediction_lightgbm( lgb, doc, vec=None, top=None, top_targets=None, target_names=None, targets=None, feature_names=None, feature_re=None, feature_filter=None, vectorized=False, ): """ Return an explanation of LightG...	[ "def", "explain_prediction_lightgbm", "(", "lgb", ",", "doc", ",", "vec", "=", "None", ",", "top", "=", "None", ",", "top_targets", "=", "None", ",", "target_names", "=", "None", ",", "targets", "=", "None", ",", "feature_names", "=", "None", ",", "featu...	36.621951	18.146341
def kmc(forward_in, database_name, min_occurrences=1, reverse_in='NA', k=31, cleanup=True, returncmd=False, tmpdir='tmp', **kwargs): """ Runs kmc to count kmers. :param forward_in: Forward input reads. Assumed to be fastq. :param database_name: Name for output kmc database. :param min_occurr...	[ "def", "kmc", "(", "forward_in", ",", "database_name", ",", "min_occurrences", "=", "1", ",", "reverse_in", "=", "'NA'", ",", "k", "=", "31", ",", "cleanup", "=", "True", ",", "returncmd", "=", "False", ",", "tmpdir", "=", "'tmp'", ",", "", "", "kw...	49.926829	21.878049
def parse_public(data): """ Loads a public key from a DER or PEM-formatted file. Supports RSA, DSA and EC public keys. For RSA keys, both the old RSAPublicKey and SubjectPublicKeyInfo structures are supported. Also allows extracting a public key from an X.509 certificate. :param data: A...	[ "def", "parse_public", "(", "data", ")", ":", "if", "not", "isinstance", "(", "data", ",", "byte_cls", ")", ":", "raise", "TypeError", "(", "pretty_message", "(", "'''\n data must be a byte string, not %s\n '''", ",", "type_name", "(", "data", ...	33.042254	21.71831
def graph_to_dot(graph, node_renderer=None, edge_renderer=None): """Produces a DOT specification string from the provided graph.""" node_pairs = list(graph.nodes.items()) edge_pairs = list(graph.edges.items()) if node_renderer is None: node_renderer_wrapper = lambda nid: '' else: no...	[ "def", "graph_to_dot", "(", "graph", ",", "node_renderer", "=", "None", ",", "edge_renderer", "=", "None", ")", ":", "node_pairs", "=", "list", "(", "graph", ".", "nodes", ".", "items", "(", ")", ")", "edge_pairs", "=", "list", "(", "graph", ".", "edge...	32.344828	18.965517
def _get_geneid2nt(nts): """Get geneid2nt given a list of namedtuples.""" geneid2nt = {} for ntd in nts: geneid = ntd.GeneID if geneid not in geneid2nt: geneid2nt[geneid] = ntd else: print("DUPLICATE GeneID FOUND {N:9} {SYM}".fo...	[ "def", "_get_geneid2nt", "(", "nts", ")", ":", "geneid2nt", "=", "{", "}", "for", "ntd", "in", "nts", ":", "geneid", "=", "ntd", ".", "GeneID", "if", "geneid", "not", "in", "geneid2nt", ":", "geneid2nt", "[", "geneid", "]", "=", "ntd", "else", ":", ...	36.7	15.3
def pair_is_consistent(graph: BELGraph, u: BaseEntity, v: BaseEntity) -> Optional[str]: """Return if the edges between the given nodes are consistent, meaning they all have the same relation. :return: If the edges aren't consistent, return false, otherwise return the relation type """ relations = {data...	[ "def", "pair_is_consistent", "(", "graph", ":", "BELGraph", ",", "u", ":", "BaseEntity", ",", "v", ":", "BaseEntity", ")", "->", "Optional", "[", "str", "]", ":", "relations", "=", "{", "data", "[", "RELATION", "]", "for", "data", "in", "graph", "[", ...	39	26.818182
def _get_api_params(api_url=None, page_id=None, api_key=None, api_version=None): ''' Retrieve the API params from the config file. ''' statuspage_cfg = __salt__['config.get']('statuspage') if not statuspage_cfg: statuspage_cfg = {} ...	[ "def", "_get_api_params", "(", "api_url", "=", "None", ",", "page_id", "=", "None", ",", "api_key", "=", "None", ",", "api_version", "=", "None", ")", ":", "statuspage_cfg", "=", "__salt__", "[", "'config.get'", "]", "(", "'statuspage'", ")", "if", "not", ...	40.6875	23.0625
def AnalizarAutorizarCertificadoResp(self, ret): "Metodo interno para extraer datos de la Respuesta de Certificación" aut = ret.get('autorizacion') if aut: self.PtoEmision = aut['ptoEmision'] self.NroOrden = aut['nroOrden'] self.FechaCertificacion = str(aut.ge...	[ "def", "AnalizarAutorizarCertificadoResp", "(", "self", ",", "ret", ")", ":", "aut", "=", "ret", ".", "get", "(", "'autorizacion'", ")", "if", "aut", ":", "self", ".", "PtoEmision", "=", "aut", "[", "'ptoEmision'", "]", "self", ".", "NroOrden", "=", "aut...	63.689922	28.356589
def close(self): """ Stop the server. """ logger.info("Stop server") self.stopped.set() for event in self.to_be_stopped: event.set() self._socket.close()	[ "def", "close", "(", "self", ")", ":", "logger", ".", "info", "(", "\"Stop server\"", ")", "self", ".", "stopped", ".", "set", "(", ")", "for", "event", "in", "self", ".", "to_be_stopped", ":", "event", ".", "set", "(", ")", "self", ".", "_socket", ...	21.3	12.9
def get_submission_archive(self, submissions, sub_folders, aggregations, archive_file=None): """ :param submissions: a list of submissions :param sub_folders: possible values: []: put all submissions in / ['taskid']: put all submissions for each task in a different direct...	[ "def", "get_submission_archive", "(", "self", ",", "submissions", ",", "sub_folders", ",", "aggregations", ",", "archive_file", "=", "None", ")", ":", "tmpfile", "=", "archive_file", "if", "archive_file", "is", "not", "None", "else", "tempfile", ".", "TemporaryF...	54.206186	29.649485
def _check_for_more_pages(self): """ Check for more pages. The last item will be sliced off. """ self._has_more = len(self._items) > self.per_page self._items = self._items[0 : self.per_page]	[ "def", "_check_for_more_pages", "(", "self", ")", ":", "self", ".", "_has_more", "=", "len", "(", "self", ".", "_items", ")", ">", "self", ".", "per_page", "self", ".", "_items", "=", "self", ".", "_items", "[", "0", ":", "self", ".", "per_page", "]"...	32.285714	14.285714
def collapse_nodes_with_same_names(graph: BELGraph) -> None: """Collapse all nodes with the same name, merging namespaces by picking first alphabetical one.""" survivor_mapping = defaultdict(set) # Collapse mapping dict victims = set() # Things already mapped while iterating it = tqdm(itt.combinations(...	[ "def", "collapse_nodes_with_same_names", "(", "graph", ":", "BELGraph", ")", "->", "None", ":", "survivor_mapping", "=", "defaultdict", "(", "set", ")", "# Collapse mapping dict", "victims", "=", "set", "(", ")", "# Things already mapped while iterating", "it", "=", ...	38.444444	24.074074
def get(self, resource, **params): """ Generic TeleSign REST API GET handler. :param resource: The partial resource URI to perform the request against, as a string. :param params: Body params to perform the GET request with, as a dictionary. :return: The RestClient Response obje...	[ "def", "get", "(", "self", ",", "resource", ",", "", "", "params", ")", ":", "return", "self", ".", "_execute", "(", "self", ".", "session", ".", "get", ",", "'GET'", ",", "resource", ",", "", "", "params", ")" ]	44.555556	21.222222
async def select_page(self, info: SQLQueryInfo, size=1, page=1) -> Tuple[Tuple[DataRecord, ...], int]: """ Select from database :param info: :param size: -1 means infinite :param page: :param need_count: if True, get count as second return value, otherwise -1 :ret...	[ "async", "def", "select_page", "(", "self", ",", "info", ":", "SQLQueryInfo", ",", "size", "=", "1", ",", "page", "=", "1", ")", "->", "Tuple", "[", "Tuple", "[", "DataRecord", ",", "...", "]", ",", "int", "]", ":", "raise", "NotImplementedError", "(...	37.8	17.2
def _ofind(self, oname, namespaces=None): """Find an object in the available namespaces. self._ofind(oname) -> dict with keys: found,obj,ospace,ismagic Has special code to detect magic functions. """ oname = oname.strip() #print '1- oname: <%r>' % oname # dbg i...	[ "def", "_ofind", "(", "self", ",", "oname", ",", "namespaces", "=", "None", ")", ":", "oname", "=", "oname", ".", "strip", "(", ")", "#print '1- oname: <%r>' % oname # dbg", "if", "not", "oname", ".", "startswith", "(", "ESC_MAGIC", ")", "and", "not", "on...	42.585106	18.021277
def _send(self, email_message): """A helper method that does the actual sending.""" if not email_message.recipients(): return False from_email = email_message.from_email recipients = email_message.recipients() try: self.connection.messages.create( to=recipients, from_=from_email, body=email_...	[ "def", "_send", "(", "self", ",", "email_message", ")", ":", "if", "not", "email_message", ".", "recipients", "(", ")", ":", "return", "False", "from_email", "=", "email_message", ".", "from_email", "recipients", "=", "email_message", ".", "recipients", "(", ...	24.176471	16.705882
def load(self): """Read the store dict from file""" with open(self.store_file_path, 'r') as fh: self.store = json.loads(fh.read())	[ "def", "load", "(", "self", ")", ":", "with", "open", "(", "self", ".", "store_file_path", ",", "'r'", ")", "as", "fh", ":", "self", ".", "store", "=", "json", ".", "loads", "(", "fh", ".", "read", "(", ")", ")" ]	31	16.4
def status(gandi, service): """Display current status from status.gandi.net.""" if not service: global_status = gandi.status.status() if global_status['status'] == 'FOGGY': # something is going on but not affecting services filters = { 'category': 'Incide...	[ "def", "status", "(", "gandi", ",", "service", ")", ":", "if", "not", "service", ":", "global_status", "=", "gandi", ".", "status", ".", "status", "(", ")", "if", "global_status", "[", "'status'", "]", "==", "'FOGGY'", ":", "# something is going on but not a...	34.636364	16.522727
def body(self, frame): """ Creates the dialog body. Returns the widget that should have initial focus. """ master = Frame(self) master.pack(padx=5, pady=0, expand=1, fill=BOTH) title = Label(master, text="Buses") title.pack(side=TOP) bus_lb = self.bu...	[ "def", "body", "(", "self", ",", "frame", ")", ":", "master", "=", "Frame", "(", "self", ")", "master", ".", "pack", "(", "padx", "=", "5", ",", "pady", "=", "0", ",", "expand", "=", "1", ",", "fill", "=", "BOTH", ")", "title", "=", "Label", ...	27.952381	19.238095
def p_subind_TO(p): """ substr : LP TO RP """ p[0] = (make_typecast(TYPE.uinteger, make_number(0, lineno=p.lineno(2)), p.lineno(1)), make_typecast(TYPE.uinteger, make_number(gl.MAX_STRSLICE_IDX, lineno=p.lineno(3)), ...	[ "def", "p_subind_TO", "(", "p", ")", ":", "p", "[", "0", "]", "=", "(", "make_typecast", "(", "TYPE", ".", "uinteger", ",", "make_number", "(", "0", ",", "lineno", "=", "p", ".", "lineno", "(", "2", ")", ")", ",", "p", ".", "lineno", "(", "1", ...	38.777778	9.222222
def __x_google_quota_descriptor(self, metric_costs): """Describes the metric costs for a call. Args: metric_costs: Dict of metric definitions to the integer cost value against that metric. Returns: A dict descriptor describing the Quota limits for the endpoint. """ return { ...	[ "def", "__x_google_quota_descriptor", "(", "self", ",", "metric_costs", ")", ":", "return", "{", "'metricCosts'", ":", "{", "metric", ":", "cost", "for", "(", "metric", ",", "cost", ")", "in", "metric_costs", ".", "items", "(", ")", "}", "}", "if", "metr...	29.133333	23.4
def tags(self, where, archiver="", timeout=DEFAULT_TIMEOUT): """ Retrieves tags for all streams matching the given WHERE clause Arguments: [where]: the where clause (e.g. 'path like "keti"', 'SourceName = "TED Main"') [archiver]: if specified, this is the archiver to use. Else, ...	[ "def", "tags", "(", "self", ",", "where", ",", "archiver", "=", "\"\"", ",", "timeout", "=", "DEFAULT_TIMEOUT", ")", ":", "return", "self", ".", "query", "(", "\"select * where {0}\"", ".", "format", "(", "where", ")", ",", "archiver", ",", "timeout", ")...	54	30.545455
def pwarning(args, *kwargs): """print formatted output to stderr with indentation control""" if should_msg(kwargs.get("groups", ["warning"])): # initialize colorama only if uninitialized global colorama_init if not colorama_init: colorama_init = True colorama.i...	[ "def", "pwarning", "(", "", "args", ",", "", "*", "kwargs", ")", ":", "if", "should_msg", "(", "kwargs", ".", "get", "(", "\"groups\"", ",", "[", "\"warning\"", "]", ")", ")", ":", "# initialize colorama only if uninitialized", "global", "colorama_init", "...	32.058824	14
def add_element(self, name, ns_uri=None, attributes=None, text=None, before_this_element=False): """ Add a new child element to this element, with an optional namespace definition. If no namespace is provided the child will be assigned to the default namespace. :para...	[ "def", "add_element", "(", "self", ",", "name", ",", "ns_uri", "=", "None", ",", "attributes", "=", "None", ",", "text", "=", "None", ",", "before_this_element", "=", "False", ")", ":", "# Determine local name, namespace and prefix info from tag name", "prefix", "...	49.736111	19.708333
def str2int(self, str_value): """Conversion class name string => integer.""" str_value = tf.compat.as_text(str_value) if self._str2int: return self._str2int[str_value] # No names provided, try to integerize failed_parse = False try: int_value = int(str_value) except ValueError: ...	[ "def", "str2int", "(", "self", ",", "str_value", ")", ":", "str_value", "=", "tf", ".", "compat", ".", "as_text", "(", "str_value", ")", "if", "self", ".", "_str2int", ":", "return", "self", ".", "_str2int", "[", "str_value", "]", "# No names provided, try...	32.2	15.8
def UpdateHuntOutputPluginState(self, hunt_id, state_index, update_fn): """Updates hunt output plugin state for a given output plugin.""" if hunt_id not in self.hunts: raise db.UnknownHuntError(hunt_id) try: state = rdf_flow_runner.OutputPluginState.FromSerializedString( self.hunt_ou...	[ "def", "UpdateHuntOutputPluginState", "(", "self", ",", "hunt_id", ",", "state_index", ",", "update_fn", ")", ":", "if", "hunt_id", "not", "in", "self", ".", "hunts", ":", "raise", "db", ".", "UnknownHuntError", "(", "hunt_id", ")", "try", ":", "state", "=...	34.166667	22.555556
def _build_brokers(self, brokers): """Build broker objects using broker-ids.""" for broker_id, metadata in six.iteritems(brokers): self.brokers[broker_id] = self._create_broker(broker_id, metadata)	[ "def", "_build_brokers", "(", "self", ",", "brokers", ")", ":", "for", "broker_id", ",", "metadata", "in", "six", ".", "iteritems", "(", "brokers", ")", ":", "self", ".", "brokers", "[", "broker_id", "]", "=", "self", ".", "_create_broker", "(", "broker_...	55.5	15.5
def form_invalid(self, form, prefix=None): """ If form invalid return error list in JSON response """ response = super(FormAjaxMixin, self).form_invalid(form) if self.request.is_ajax(): data = { "errors_list": self.add_prefix(form.errors, prefix), } ...	[ "def", "form_invalid", "(", "self", ",", "form", ",", "prefix", "=", "None", ")", ":", "response", "=", "super", "(", "FormAjaxMixin", ",", "self", ")", ".", "form_invalid", "(", "form", ")", "if", "self", ".", "request", ".", "is_ajax", "(", ")", ":...	47.6	19
def pack_int(v): """ Returns <v> as packed string. """ if v == 0: return "\0" ret = '' while v > 0: c = v & 127 v >>= 7 if v != 0: c = c \| 128 ret += chr(c) return ret	[ "def", "pack_int", "(", "v", ")", ":", "if", "v", "==", "0", ":", "return", "\"\\0\"", "ret", "=", "''", "while", "v", ">", "0", ":", "c", "=", "v", "&", "127", "v", ">>=", "7", "if", "v", "!=", "0", ":", "c", "=", "c", "\|", "128", "ret",...	19	21.083333
def handler(self): 'Handler function' from feedjack import filters # shouldn't be imported globally, as they may depend on models proc_func = getattr(filters, self.handler_name or self.name, None) if proc_func is None: if '.' not in self.handler_name: raise ImportError('Processing function not available:...	[ "def", "handler", "(", "self", ")", ":", "from", "feedjack", "import", "filters", "# shouldn't be imported globally, as they may depend on models", "proc_func", "=", "getattr", "(", "filters", ",", "self", ".", "handler_name", "or", "self", ".", "name", ",", "None",...	51.8	29
def filter_aliases(alias_table): """ Filter aliases that does not have a command field in the configuration file. Args: alias_table: The alias table. Yield: A tuple with [0] being the first word of the alias and [1] being the command that the alias points to. """ for al...	[ "def", "filter_aliases", "(", "alias_table", ")", ":", "for", "alias", "in", "alias_table", ".", "sections", "(", ")", ":", "if", "alias_table", ".", "has_option", "(", "alias", ",", "'command'", ")", ":", "yield", "(", "alias", ".", "split", "(", ")", ...	35.071429	21.5
def check_node(self, tup_tree, nodename, required_attrs=None, optional_attrs=None, allowed_children=None, allow_pcdata=False): # pylint: disable=too-many-branches """ Check static local constraints on a tuple tree node. The node must have the given ...	[ "def", "check_node", "(", "self", ",", "tup_tree", ",", "nodename", ",", "required_attrs", "=", "None", ",", "optional_attrs", "=", "None", ",", "allowed_children", "=", "None", ",", "allow_pcdata", "=", "False", ")", ":", "# pylint: disable=too-many-branches", ...	42.588235	19.576471
def beta(returns, factor_returns, risk_free=0.0, out=None): """Calculates beta. Parameters ---------- returns : pd.Series Daily returns of the strategy, noncumulative. - See full explanation in :func:`~empyrical.stats.cum_returns`. factor_returns : pd.Series Daily noncumula...	[ "def", "beta", "(", "returns", ",", "factor_returns", ",", "risk_free", "=", "0.0", ",", "out", "=", "None", ")", ":", "if", "not", "(", "isinstance", "(", "returns", ",", "np", ".", "ndarray", ")", "and", "isinstance", "(", "factor_returns", ",", "np"...	32.545455	19.818182
def after_retract(analysis): """Function triggered after a 'retract' transition for the analysis passed in is performed. The analysis transitions to "retracted" state and a new copy of the analysis is created. The copy initial state is "unassigned", unless the the retracted analysis was assigned to a wo...	[ "def", "after_retract", "(", "analysis", ")", ":", "# Retract our dependents (analyses that depend on this analysis)", "cascade_to_dependents", "(", "analysis", ",", "\"retract\"", ")", "# Retract our dependencies (analyses this analysis depends on)", "promote_to_dependencies", "(", ...	43.232558	19.906977
def system_add_keyspace(self, ks_def): """ adds a keyspace and any column families that are part of it. returns the new schema id. Parameters: - ks_def """ self._seqid += 1 d = self._reqs[self._seqid] = defer.Deferred() self.send_system_add_keyspace(ks_def) return d	[ "def", "system_add_keyspace", "(", "self", ",", "ks_def", ")", ":", "self", ".", "_seqid", "+=", "1", "d", "=", "self", ".", "_reqs", "[", "self", ".", "_seqid", "]", "=", "defer", ".", "Deferred", "(", ")", "self", ".", "send_system_add_keyspace", "("...	26.727273	18.545455
def secret_absent(name, namespace='default', **kwargs): ''' Ensures that the named secret is absent from the given namespace. name The name of the secret namespace The name of the namespace ''' ret = {'name': name, 'changes': {}, 'result': False, ...	[ "def", "secret_absent", "(", "name", ",", "namespace", "=", "'default'", ",", "", "", "kwargs", ")", ":", "ret", "=", "{", "'name'", ":", "name", ",", "'changes'", ":", "{", "}", ",", "'result'", ":", "False", ",", "'comment'", ":", "''", "}", "s...	28.076923	23.512821
def blueprint(blueprint_name): """ create and register a blueprint """ app = os.getcwd().split('/')[-1] if app != 'app': logger.warning('''\033[31m{Warning}\033[0m ==> your current path is \033[32m%s\033[0m\n ==> please create your blueprint under app folder!''' % os.getcwd()) exit(1...	[ "def", "blueprint", "(", "blueprint_name", ")", ":", "app", "=", "os", ".", "getcwd", "(", ")", ".", "split", "(", "'/'", ")", "[", "-", "1", "]", "if", "app", "!=", "'app'", ":", "logger", ".", "warning", "(", "'''\\033[31m{Warning}\\033[0m\n==> your cu...	30.735849	16.849057
def stop(self): """Stop the name server. """ self.listener.setsockopt(LINGER, 1) self.loop = False with nslock: self.listener.close()	[ "def", "stop", "(", "self", ")", ":", "self", ".", "listener", ".", "setsockopt", "(", "LINGER", ",", "1", ")", "self", ".", "loop", "=", "False", "with", "nslock", ":", "self", ".", "listener", ".", "close", "(", ")" ]	25.571429	10
def runSearchVariantAnnotations(self, request): """ Runs the specified SearchVariantAnnotationsRequest. """ return self.runSearchRequest( request, protocol.SearchVariantAnnotationsRequest, protocol.SearchVariantAnnotationsResponse, self.variantAnnotati...	[ "def", "runSearchVariantAnnotations", "(", "self", ",", "request", ")", ":", "return", "self", ".", "runSearchRequest", "(", "request", ",", "protocol", ".", "SearchVariantAnnotationsRequest", ",", "protocol", ".", "SearchVariantAnnotationsResponse", ",", "self", ".",...	40.75	8.75
def variable_declaration(self): """ variable_declaration: 'let' assignment ';' """ self._process(Nature.LET) node = VariableDeclaration(assignment=self.assignment()) self._process(Nature.SEMI) return node	[ "def", "variable_declaration", "(", "self", ")", ":", "self", ".", "_process", "(", "Nature", ".", "LET", ")", "node", "=", "VariableDeclaration", "(", "assignment", "=", "self", ".", "assignment", "(", ")", ")", "self", ".", "_process", "(", "Nature", "...	31.625	9.625
def calculate_oobatake_dS(seq, temp): """Get dS using Oobatake method in units cal/mol. Args: seq (str, Seq, SeqRecord): Amino acid sequence temp (float): Temperature in degrees C Returns: float: dS in units cal/mol """ seq = ssbio.protein.sequence.utils.cast_to_str(seq) ...	[ "def", "calculate_oobatake_dS", "(", "seq", ",", "temp", ")", ":", "seq", "=", "ssbio", ".", "protein", ".", "sequence", ".", "utils", ".", "cast_to_str", "(", "seq", ")", "dS", "=", "0", "temp", "+=", "273.15", "T0", "=", "298.15", "dCp_sum", "=", "...	22.772727	20.136364
def _get_separated_values(self, secondary=False): """Separate values between odd and even series stacked""" series = self.secondary_series if secondary else self.series positive_vals = map( sum, zip( *[ serie.safe_values for index, seri...	[ "def", "_get_separated_values", "(", "self", ",", "secondary", "=", "False", ")", ":", "series", "=", "self", ".", "secondary_series", "if", "secondary", "else", "self", ".", "series", "positive_vals", "=", "map", "(", "sum", ",", "zip", "(", "*", "[", "...	31.318182	20.909091
def read_byte(self, do_ord=True) -> int: """ Read a single byte. Args: do_ord (bool): (default True) convert the byte to an ordinal first. Returns: bytes: a single byte if successful. 0 (int) if an exception occurred. """ try: if do_ord...	[ "def", "read_byte", "(", "self", ",", "do_ord", "=", "True", ")", "->", "int", ":", "try", ":", "if", "do_ord", ":", "return", "ord", "(", "self", ".", "stream", ".", "read", "(", "1", ")", ")", "else", ":", "return", "self", ".", "stream", ".", ...	34.4	17.333333
def use_comparative_assessment_taken_view(self): """Pass through to provider AssessmentTakenLookupSession.use_comparative_assessment_taken_view""" self._object_views['assessment_taken'] = COMPARATIVE # self._get_provider_session('assessment_taken_lookup_session') # To make sure the session is tr...	[ "def", "use_comparative_assessment_taken_view", "(", "self", ")", ":", "self", ".", "_object_views", "[", "'assessment_taken'", "]", "=", "COMPARATIVE", "# self._get_provider_session('assessment_taken_lookup_session') # To make sure the session is tracked", "for", "session", "in", ...	56.444444	20.333333
def add_error(cls, queue_name, job, error, when=None, trace=None, **additional_fields): """ Add a new error in redis. `job` is a job which generated the error `queue_name` is the name of the queue where the error arrived `er...	[ "def", "add_error", "(", "cls", ",", "queue_name", ",", "job", ",", "error", ",", "when", "=", "None", ",", "trace", "=", "None", ",", "", "", "additional_fields", ")", ":", "if", "when", "is", "None", ":", "when", "=", "datetime", ".", "utcnow", ...	34.212766	19.531915
def _pre_process_call(self, name="Unknown", endpoint_params=None): """ This is called by the method_decorator within the Endpoint. The point is to capture a slot for the endpoint.method to put it's final _calls. It also allows for some special new arguments that will be extracted...	[ "def", "_pre_process_call", "(", "self", ",", "name", "=", "\"Unknown\"", ",", "endpoint_params", "=", "None", ")", ":", "call_temps", "=", "self", ".", "_call_temps", ".", "get", "(", "self", ".", "_get_thread_id", "(", ")", ",", "None", ")", "call_params...	41.25	18.557692
def execute_policy(self, policy): """ Executes the specified policy for this scaling group. """ return self.manager.execute_policy(scaling_group=self, policy=policy)	[ "def", "execute_policy", "(", "self", ",", "policy", ")", ":", "return", "self", ".", "manager", ".", "execute_policy", "(", "scaling_group", "=", "self", ",", "policy", "=", "policy", ")" ]	38.6	13
def get_max_length(self): """ Return the maximum length of the pianorolls along the time axis (in time step). Returns ------- max_length : int The maximum length of the pianorolls along the time axis (in time step). """ max_length...	[ "def", "get_max_length", "(", "self", ")", ":", "max_length", "=", "0", "for", "track", "in", "self", ".", "tracks", ":", "if", "max_length", "<", "track", ".", "pianoroll", ".", "shape", "[", "0", "]", ":", "max_length", "=", "track", ".", "pianoroll"...	28	20.117647
def _buildTemplates(self): """ OVERRIDING THIS METHOD from Factory """ c_mydict = build_class_json(self.ontospy_graph.all_classes) JSON_DATA_CLASSES = json.dumps(c_mydict) extra_context = { "ontograph": self.ontospy_graph, 'JSON_DATA_CL...	[ "def", "_buildTemplates", "(", "self", ")", ":", "c_mydict", "=", "build_class_json", "(", "self", ".", "ontospy_graph", ".", "all_classes", ")", "JSON_DATA_CLASSES", "=", "json", ".", "dumps", "(", "c_mydict", ")", "extra_context", "=", "{", "\"ontograph\"", ...	30.35	21.15
def create_new_migration_record(self): """ Create a new migration record for this migration set """ migration_record = self.migration_model( name=self.name, version=self.latest_migration) self.session.add(migration_record) self.session.commit()	[ "def", "create_new_migration_record", "(", "self", ")", ":", "migration_record", "=", "self", ".", "migration_model", "(", "name", "=", "self", ".", "name", ",", "version", "=", "self", ".", "latest_migration", ")", "self", ".", "session", ".", "add", "(", ...	34.222222	6.444444
def reset(self): """Deletes all entries in the cache area""" if self.collname not in self.current_kv_names(): return # nothing to do # we'll simply delete the entire collection and then re-create it. r = self.request('delete', self.url+"storage/collec...	[ "def", "reset", "(", "self", ")", ":", "if", "self", ".", "collname", "not", "in", "self", ".", "current_kv_names", "(", ")", ":", "return", "# nothing to do", "# we'll simply delete the entire collection and then re-create it.", "r", "=", "self", ".", "request", ...	43.777778	16.555556
def complete_session_endpoint(self, cmd_param_text, full_cmd, *rest): """ TODO: the hosts lists can be retrieved from self.zk.hosts """ complete_hosts = partial(complete_values, ["127.0.0.1:2181"]) completers = [self._complete_path, complete_hosts, complete_labeled_boolean("reverse")] re...	[ "def", "complete_session_endpoint", "(", "self", ",", "cmd_param_text", ",", "full_cmd", ",", "*", "rest", ")", ":", "complete_hosts", "=", "partial", "(", "complete_values", ",", "[", "\"127.0.0.1:2181\"", "]", ")", "completers", "=", "[", "self", ".", "_comp...	74.8	28.2
def welcome(self): """Personalized welcome page""" if not g.user or not g.user.get_id(): return redirect(appbuilder.get_url_for_login) welcome_dashboard_id = ( db.session .query(UserAttribute.welcome_dashboard_id) .filter_by(user_id=g.user.get_id(...	[ "def", "welcome", "(", "self", ")", ":", "if", "not", "g", ".", "user", "or", "not", "g", ".", "user", ".", "get_id", "(", ")", ":", "return", "redirect", "(", "appbuilder", ".", "get_url_for_login", ")", "welcome_dashboard_id", "=", "(", "db", ".", ...	31	18.4
def coordinates(self, x, y): '''return coordinates of a pixel in the map''' state = self.state return state.mt.coord_from_area(x, y, state.lat, state.lon, state.width, state.ground_width)	[ "def", "coordinates", "(", "self", ",", "x", ",", "y", ")", ":", "state", "=", "self", ".", "state", "return", "state", ".", "mt", ".", "coord_from_area", "(", "x", ",", "y", ",", "state", ".", "lat", ",", "state", ".", "lon", ",", "state", ".", ...	52	25
def match(self, version): """Check whether a Version satisfies the Spec.""" return all(spec.match(version) for spec in self.specs)	[ "def", "match", "(", "self", ",", "version", ")", ":", "return", "all", "(", "spec", ".", "match", "(", "version", ")", "for", "spec", "in", "self", ".", "specs", ")" ]	48	12.333333
def additionalProperties(self): """Schema for all additional properties, or False.""" value = self._schema.get("additionalProperties", {}) if not isinstance(value, dict) and value is not False: raise SchemaError( "additionalProperties value {0!r} is neither false nor"...	[ "def", "additionalProperties", "(", "self", ")", ":", "value", "=", "self", ".", "_schema", ".", "get", "(", "\"additionalProperties\"", ",", "{", "}", ")", "if", "not", "isinstance", "(", "value", ",", "dict", ")", "and", "value", "is", "not", "False", ...	47.25	14.375
def _values_of_same_type(self, val1, val2): """Checks if two values agree in type. Raises a TypeError if both values are not supported by the parameter. Returns false if only one of the two values is supported by the parameter. Example usage: >>>param._values_of_same_type(42,4...	[ "def", "_values_of_same_type", "(", "self", ",", "val1", ",", "val2", ")", ":", "if", "self", ".", "f_supports", "(", "val1", ")", "!=", "self", ".", "f_supports", "(", "val2", ")", ":", "return", "False", "if", "not", "self", ".", "f_supports", "(", ...	33.285714	25.214286
def get_file(self, file_hash, save_file_at, timeout=None): """ Get the scan results for a file. Even if you do not have a Private Mass API key that you can use, you can still download files from the VirusTotal storage making use of your VirusTotal Intelligence quota, i.e. programmatic downloads...	[ "def", "get_file", "(", "self", ",", "file_hash", ",", "save_file_at", ",", "timeout", "=", "None", ")", ":", "params", "=", "{", "'hash'", ":", "file_hash", ",", "'apikey'", ":", "self", ".", "api_key", "}", "try", ":", "response", "=", "requests", "....	46.518519	28.555556
def accel_prev(self, *args): """Callback to go to the previous tab. Called by the accel key. """ if self.get_notebook().get_current_page() == 0: self.get_notebook().set_current_page(self.get_notebook().get_n_pages() - 1) else: self.get_notebook().prev_page() ...	[ "def", "accel_prev", "(", "self", ",", "*", "args", ")", ":", "if", "self", ".", "get_notebook", "(", ")", ".", "get_current_page", "(", ")", "==", "0", ":", "self", ".", "get_notebook", "(", ")", ".", "set_current_page", "(", "self", ".", "get_noteboo...	40.875	15.625
def consume(self, length): """ >>> OutBuffer().add(b"spam").consume(2).getvalue() == b"am" True @type length: int @returns: self """ self.buff = io.BytesIO(self.getvalue()[length:]) return self	[ "def", "consume", "(", "self", ",", "length", ")", ":", "self", ".", "buff", "=", "io", ".", "BytesIO", "(", "self", ".", "getvalue", "(", ")", "[", "length", ":", "]", ")", "return", "self" ]	20.1	19.1
def getSignalParameters(fitParams, n_std=3): ''' return minimum, average, maximum of the signal peak ''' signal = getSignalPeak(fitParams) mx = signal[1] + n_std * signal[2] mn = signal[1] - n_std * signal[2] if mn < fitParams[0][1]: mn = fitParams[0][1] # set to bg ret...	[ "def", "getSignalParameters", "(", "fitParams", ",", "n_std", "=", "3", ")", ":", "signal", "=", "getSignalPeak", "(", "fitParams", ")", "mx", "=", "signal", "[", "1", "]", "+", "n_std", "*", "signal", "[", "2", "]", "mn", "=", "signal", "[", "1", ...	33.2	11.4
def get_context_data(self, kwargs): """ We supplement the normal context data by adding our fields and labels. """ context = super(SmartView, self).get_context_data(kwargs) # derive our field config self.field_config = self.derive_field_config() # add our fi...	[ "def", "get_context_data", "(", "self", ",", "", "", "kwargs", ")", ":", "context", "=", "super", "(", "SmartView", ",", "self", ")", ".", "get_context_data", "(", "", "", "kwargs", ")", "# derive our field config", "self", ".", "field_config", "=", "s...	34.214286	19.178571
def aniso_magic_nb(infile='specimens.txt', samp_file='samples.txt', site_file='sites.txt', verbose=True, ipar=False, ihext=True, ivec=False, isite=False, iloc=False, iboot=False, vec=0, Dir=[], PDir=[], crd="s", num_bootstraps=1000, dir_path=".", fignum=1, save_p...	[ "def", "aniso_magic_nb", "(", "infile", "=", "'specimens.txt'", ",", "samp_file", "=", "'samples.txt'", ",", "site_file", "=", "'sites.txt'", ",", "verbose", "=", "True", ",", "ipar", "=", "False", ",", "ihext", "=", "True", ",", "ivec", "=", "False", ",",...	43.164706	19.870588
def reset(self, new_session=True): """Clear all internal namespaces, and attempt to release references to user objects. If new_session is True, a new history session will be opened. """ # Clear histories self.history_manager.reset(new_session) # Reset counter use...	[ "def", "reset", "(", "self", ",", "new_session", "=", "True", ")", ":", "# Clear histories", "self", ".", "history_manager", ".", "reset", "(", "new_session", ")", "# Reset counter used to index all histories", "if", "new_session", ":", "self", ".", "execution_count...	34.340909	15.818182
def read_namespaced_replication_controller(self, name, namespace, **kwargs): # noqa: E501 """read_namespaced_replication_controller # noqa: E501 read the specified ReplicationController # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP...	[ "def", "read_namespaced_replication_controller", "(", "self", ",", "name", ",", "namespace", ",", "", "", "kwargs", ")", ":", "# noqa: E501", "kwargs", "[", "'_return_http_data_only'", "]", "=", "True", "if", "kwargs", ".", "get", "(", "'async_req'", ")", ":...	59.4	31.4
def _convert_slice_incement_inconsistencies(dicom_input): """ If there is slice increment inconsistency detected, for the moment CT images, then split the volumes into subvolumes based on the slice increment and process each volume separately using a space constructed based on the highest resolution increment ...	[ "def", "_convert_slice_incement_inconsistencies", "(", "dicom_input", ")", ":", "# Estimate the \"first\" slice increment based on the 2 first slices", "increment", "=", "numpy", ".", "array", "(", "dicom_input", "[", "0", "]", ".", "ImagePositionPatient", ")", "-", "nump...	55.25	30.472222
def register_child(cls, prop, child_cls): """ Register a new :class:`XMLStreamClass` instance `child_cls` for a given :class:`Child` descriptor `prop`. .. warning:: This method cannot be used after a class has been derived from this class. This is for consistency:...	[ "def", "register_child", "(", "cls", ",", "prop", ",", "child_cls", ")", ":", "if", "cls", ".", "__subclasses__", "(", ")", ":", "raise", "TypeError", "(", "\"register_child is forbidden on classes with subclasses\"", "\" (subclasses: {})\"", ".", "format", "(", "\"...	43.955556	25.911111
def remove(self, key, value): """ Removes the given key-value tuple from the multimap. Warning: This method uses __hash__ and __eq__ methods of binary form of the key, not the actual implementations of __hash__ and __eq__ defined in key's class. :param key: (object), the k...	[ "def", "remove", "(", "self", ",", "key", ",", "value", ")", ":", "check_not_none", "(", "key", ",", "\"key can't be None\"", ")", "check_not_none", "(", "key", ",", "\"value can't be None\"", ")", "key_data", "=", "self", ".", "_to_data", "(", "key", ")", ...	52.117647	26.588235
def check_rdd_dtype(rdd, expected_dtype): """Checks if the blocks in the RDD matches the expected types. Parameters: ----------- rdd: splearn.BlockRDD The RDD to check expected_dtype: {type, list of types, tuple of types, dict of types} Expected type(s). If the RDD is a DictRDD the ...	[ "def", "check_rdd_dtype", "(", "rdd", ",", "expected_dtype", ")", ":", "if", "not", "isinstance", "(", "rdd", ",", "BlockRDD", ")", ":", "raise", "TypeError", "(", "\"Expected {0} for parameter rdd, got {1}.\"", ".", "format", "(", "BlockRDD", ",", "type", "(", ...	35.333333	17.305556
def score_braycurtis(self, term1, term2, **kwargs): """ Compute a weighting score based on the "City Block" distance between the kernel density estimates of two terms. Args: term1 (str) term2 (str) Returns: float """ t1_kde = self.kde(t...	[ "def", "score_braycurtis", "(", "self", ",", "term1", ",", "term2", ",", "", "", "kwargs", ")", ":", "t1_kde", "=", "self", ".", "kde", "(", "term1", ",", "", "", "kwargs", ")", "t2_kde", "=", "self", ".", "kde", "(", "term2", ",", "", "", ...	24.470588	20.705882
def formatError(self, test, err): """Add captured log messages to error output. """ # logic flow copied from Capture.formatError test.capturedLogging = records = self.formatLogRecords() if not records: return err ec, ev, tb = err return (ec, self.addCa...	[ "def", "formatError", "(", "self", ",", "test", ",", "err", ")", ":", "# logic flow copied from Capture.formatError", "test", ".", "capturedLogging", "=", "records", "=", "self", ".", "formatLogRecords", "(", ")", "if", "not", "records", ":", "return", "err", ...	37.777778	12.444444
def kernel_config(): """Create a config object with IPython kernel options.""" import ipykernel from IPython.core.application import get_ipython_dir from traitlets.config.loader import Config, load_pyconfig_files # ---- IPython config ---- try: profile_path = osp.join(get_ipython_dir(),...	[ "def", "kernel_config", "(", ")", ":", "import", "ipykernel", "from", "IPython", ".", "core", ".", "application", "import", "get_ipython_dir", "from", "traitlets", ".", "config", ".", "loader", "import", "Config", ",", "load_pyconfig_files", "# ---- IPython config -...	37.213873	17.751445
def newNsProp(self, node, name, value): """Create a new property tagged with a namespace and carried by a node. """ if node is None: node__o = None else: node__o = node._o ret = libxml2mod.xmlNewNsProp(node__o, self._o, name, value) if ret is None:raise treeError('xmlN...	[ "def", "newNsProp", "(", "self", ",", "node", ",", "name", ",", "value", ")", ":", "if", "node", "is", "None", ":", "node__o", "=", "None", "else", ":", "node__o", "=", "node", ".", "_o", "ret", "=", "libxml2mod", ".", "xmlNewNsProp", "(", "node__o",...	42.888889	9.888889
def Nu_Jackson(Re, Pr, rho_w=None, rho_b=None, Cp_avg=None, Cp_b=None, T_b=None, T_w=None, T_pc=None): r'''Calculates internal convection Nusselt number for turbulent vertical upward flow in a pipe under supercritical conditions according to [1]_. .. math:: Nu_b = 0.0183 Re_b...	[ "def", "Nu_Jackson", "(", "Re", ",", "Pr", ",", "rho_w", "=", "None", ",", "rho_b", "=", "None", ",", "Cp_avg", "=", "None", ",", "Cp_b", "=", "None", ",", "T_b", "=", "None", ",", "T_w", "=", "None", ",", "T_pc", "=", "None", ")", ":", "if", ...	38.346535	23.950495
def is_none_or(self): """ Ensures :attr:`subject` is either ``None``, or satisfies subsequent (chained) conditions:: Ensure(None).is_none_or.is_an(int) """ if self._subject is None: return NoOpInspector(subject=self._subject, error_factory=self._error_factory) ...	[ "def", "is_none_or", "(", "self", ")", ":", "if", "self", ".", "_subject", "is", "None", ":", "return", "NoOpInspector", "(", "subject", "=", "self", ".", "_subject", ",", "error_factory", "=", "self", ".", "_error_factory", ")", "else", ":", "return", "...	34.6	22.4
def settings_system_update(self, data): """ Set system settings. Uses PUT to /settings/system interface :Args: * data: (dict) Settings dictionary as specified `here <https://cloud.knuverse.com/docs/api/#api-System_Settings-Set_System_Settings>`_. :Returns: None "...	[ "def", "settings_system_update", "(", "self", ",", "data", ")", ":", "data", "[", "\"auth_password\"", "]", "=", "self", ".", "_password", "response", "=", "self", ".", "_put", "(", "url", ".", "settings_system", ",", "body", "=", "data", ")", "self", "....	35.615385	25.461538
def _parse_example_spec(self): """Returns a `tf.Example` parsing spec as dict.""" height, width = image_util.get_expected_image_size(self.module_spec) input_shape = [height, width, 3] return {self.key: tf_v1.FixedLenFeature(input_shape, tf.float32)}	[ "def", "_parse_example_spec", "(", "self", ")", ":", "height", ",", "width", "=", "image_util", ".", "get_expected_image_size", "(", "self", ".", "module_spec", ")", "input_shape", "=", "[", "height", ",", "width", ",", "3", "]", "return", "{", "self", "."...	52.2	15
def load_sound_font(self, sf2): """Load a sound font. Return True on success, False on failure. This function should be called before your audio can be played, since the instruments are kept in the sf2 file. """ self.sfid = self.fs.sfload(sf2) return not self.sf...	[ "def", "load_sound_font", "(", "self", ",", "sf2", ")", ":", "self", ".", "sfid", "=", "self", ".", "fs", ".", "sfload", "(", "sf2", ")", "return", "not", "self", ".", "sfid", "==", "-", "1" ]	31.9	15.1
def _get_binary(self): """ find binaries available""" ## check for binary backup_binaries = ["raxmlHPC-PTHREADS", "raxmlHPC-PTHREADS-SSE3"] ## check user binary first, then backups for binary in [self.params.binary] + backup_binaries: proc = subprocess.Popen(["which...	[ "def", "_get_binary", "(", "self", ")", ":", "## check for binary", "backup_binaries", "=", "[", "\"raxmlHPC-PTHREADS\"", ",", "\"raxmlHPC-PTHREADS-SSE3\"", "]", "## check user binary first, then backups", "for", "binary", "in", "[", "self", ".", "params", ".", "binary"...	36.666667	19.111111
def cast(keys, data): """Cast a set of keys and an array to a Matrix object.""" matrix = Matrix() matrix.keys = keys matrix.data = data return matrix	[ "def", "cast", "(", "keys", ",", "data", ")", ":", "matrix", "=", "Matrix", "(", ")", "matrix", ".", "keys", "=", "keys", "matrix", ".", "data", "=", "data", "return", "matrix" ]	30.666667	13.5
def slot_add_binding(self, slot_number, adapter): """ Adds a slot binding (a module into a slot). :param slot_number: slot number :param adapter: device to add in the corresponding slot """ try: slot = self._slots[slot_number] except IndexError: ...	[ "def", "slot_add_binding", "(", "self", ",", "slot_number", ",", "adapter", ")", ":", "try", ":", "slot", "=", "self", ".", "_slots", "[", "slot_number", "]", "except", "IndexError", ":", "raise", "DynamipsError", "(", "'Slot {slot_number} does not exist on router...	65.354167	48.1875
def _ParseTokenType(self, file_object, file_offset): """Parses a token type. Args: file_object (dfvfs.FileIO): file-like object. file_offset (int): offset of the token relative to the start of the file-like object. Returns: int: token type """ token_type_map = self._Get...	[ "def", "_ParseTokenType", "(", "self", ",", "file_object", ",", "file_offset", ")", ":", "token_type_map", "=", "self", ".", "_GetDataTypeMap", "(", "'uint8'", ")", "token_type", ",", "_", "=", "self", ".", "_ReadStructureFromFileObject", "(", "file_object", ","...	26.647059	20.647059
def timeseries(self): """ Feed-in time series of generator It returns the actual time series used in power flow analysis. If :attr:`_timeseries` is not :obj:`None`, it is returned. Otherwise, :meth:`timeseries` looks for generation and curtailment time series of the acco...	[ "def", "timeseries", "(", "self", ")", ":", "if", "self", ".", "_timeseries", "is", "None", ":", "# get time series for active power depending on if they are", "# differentiated by weather cell ID or not", "if", "isinstance", "(", "self", ".", "grid", ".", "network", "....	42.2	21.153846
def _imm_repr(self): ''' The default representation function for an immutable object. ''' return (type(self).__name__ + ('(' if _imm_is_persist(self) else '*(') + ', '.join([k + '=' + str(v) for (k,v) in six.iteritems(imm_params(self))]) + ')')	[ "def", "_imm_repr", "(", "self", ")", ":", "return", "(", "type", "(", "self", ")", ".", "__name__", "+", "(", "'('", "if", "_imm_is_persist", "(", "self", ")", "else", "'*('", ")", "+", "', '", ".", "join", "(", "[", "k", "+", "'='", "+", "str",...	36.125	25.375
def _sigma_ee_rel(self, gam, eps): """ Eq. A1, A4 of Baring et al. (1999) Use for Ee > 2 MeV """ A = 1 - 8 / 3 * (gam - 1) ** 0.2 / (gam + 1) * (eps / gam) ** ( 1.0 / 3.0 ) return (self._sigma_1(gam, eps) + self._sigma_2(gam, eps)) * A	[ "def", "_sigma_ee_rel", "(", "self", ",", "gam", ",", "eps", ")", ":", "A", "=", "1", "-", "8", "/", "3", "", "(", "gam", "-", "1", ")", "", "0.2", "/", "(", "gam", "+", "1", ")", "", "(", "eps", "/", "gam", ")", "**", "(", "1.0", "...	29.5	17.3
def vars(self): """Alternative naming, you can use `node.vars.name` instead of `node.v_name`""" if self._vars is None: self._vars = NNTreeNodeVars(self) return self._vars	[ "def", "vars", "(", "self", ")", ":", "if", "self", ".", "_vars", "is", "None", ":", "self", ".", "_vars", "=", "NNTreeNodeVars", "(", "self", ")", "return", "self", ".", "_vars" ]	40.4	11
def count_protein_group_hits(lineproteins, groups): """Takes a list of protein accessions and a list of protein groups content from DB. Counts for each group in list how many proteins are found in lineproteins. Returns list of str amounts. """ hits = [] for group in groups: hits.append(0...	[ "def", "count_protein_group_hits", "(", "lineproteins", ",", "groups", ")", ":", "hits", "=", "[", "]", "for", "group", "in", "groups", ":", "hits", ".", "append", "(", "0", ")", "for", "protein", "in", "lineproteins", ":", "if", "protein", "in", "group"...	37	12.416667
def _create_request_schema(self, params, required): """Create a JSON schema for a request. :param list params: A list of keys specifying which definitions from the base schema should be allowed in the request. :param list required: A subset of the params that the requester must ...	[ "def", "_create_request_schema", "(", "self", ",", "params", ",", "required", ")", ":", "# We allow additional properties because the data this will validate", "# may also include kwargs passed by decorators on the handler method.", "schema", "=", "{", "'additionalProperties'", ":", ...	45.95	16.1
def _get_visit_name(self): """ return the visit name for the mixed class. When calling 'accept', the method <'visit_' + name returned by this method> will be called on the visitor """ try: # pylint: disable=no-member return self.TYPE.replace("-", "...	[ "def", "_get_visit_name", "(", "self", ")", ":", "try", ":", "# pylint: disable=no-member", "return", "self", ".", "TYPE", ".", "replace", "(", "\"-\"", ",", "\"_\"", ")", "# pylint: disable=broad-except", "except", "Exception", ":", "return", "self", ".", "__cl...	35.666667	14.666667
def cornerbound(results, it=None, idx=None, prior_transform=None, periodic=None, ndraws=5000, color='gray', plot_kwargs=None, labels=None, label_kwargs=None, max_n_ticks=5, use_math_text=False, show_live=False, live_color='darkviolet', live_kwargs=None, sp...	[ "def", "cornerbound", "(", "results", ",", "it", "=", "None", ",", "idx", "=", "None", ",", "prior_transform", "=", "None", ",", "periodic", "=", "None", ",", "ndraws", "=", "5000", ",", "color", "=", "'gray'", ",", "plot_kwargs", "=", "None", ",", "...	40.457726	20.189504

def max(self, axis=None, keepdims=False): """ Return the maximum of the array over the given axis. Parameters ---------- axis : tuple or int, optional, default=None Axis to compute statistic over, if None will compute over all axes keepdims : boo...

[ "def", "max", "(", "self", ",", "axis", "=", "None", ",", "keepdims", "=", "False", ")", ":", "from", "numpy", "import", "maximum", "return", "self", ".", "_stat", "(", "axis", ",", "func", "=", "maximum", ",", "keepdims", "=", "keepdims", ")" ]

33.8

15.4

def install(self, package): '''Install a python package using pip''' logger.debug('Installing ' + package) shell.run(self.pip_path, 'install', package)

[ "def", "install", "(", "self", ",", "package", ")", ":", "logger", ".", "debug", "(", "'Installing '", "+", "package", ")", "shell", ".", "run", "(", "self", ".", "pip_path", ",", "'install'", ",", "package", ")" ]

34.6

15.8

def ParseOptions(cls, options, output_module): """Parses and validates options. Args: options (argparse.Namespace): parser options. output_module (OutputModule): output module to configure. Raises: BadConfigObject: when the output module object does not have the SetCredentials ...

[ "def", "ParseOptions", "(", "cls", ",", "options", ",", "output_module", ")", ":", "if", "not", "hasattr", "(", "output_module", ",", "'SetCredentials'", ")", ":", "raise", "errors", ".", "BadConfigObject", "(", "'Unable to set username information.'", ")", "if", ...

40.037037

21.481481

def describe_availability_zones(self, xml_bytes): """Parse the XML returned by the C{DescribeAvailibilityZones} function. @param xml_bytes: XML bytes with a C{DescribeAvailibilityZonesResponse} root element. @return: a C{list} of L{AvailabilityZone}. TODO: regionName, messa...

[ "def", "describe_availability_zones", "(", "self", ",", "xml_bytes", ")", ":", "results", "=", "[", "]", "root", "=", "XML", "(", "xml_bytes", ")", "for", "zone_data", "in", "root", ".", "find", "(", "\"availabilityZoneInfo\"", ")", ":", "zone_name", "=", ...

40.125

18

def add_missing_price_information_message(request, item): """ Add a message to the Django messages store indicating that we failed to retrieve price information about an item. :param request: The current request. :param item: The item for which price information is missing. Example: a program title, or...

[ "def", "add_missing_price_information_message", "(", "request", ",", "item", ")", ":", "messages", ".", "warning", "(", "request", ",", "_", "(", "'{strong_start}We could not gather price information for {em_start}{item}{em_end}.{strong_end} '", "'{span_start}If you continue to hav...

42.75

27.178571

def get_trend(self): """ Get the trend for the last two metric values using the interval defined in the metric :return: a tuple with the metric value for the last interval and the trend percentage between the last two intervals """ """ """ # TODO: We j...

[ "def", "get_trend", "(", "self", ")", ":", "\"\"\" \"\"\"", "# TODO: We just need the last two periods, not the full ts", "ts", "=", "self", ".", "get_ts", "(", ")", "last", "=", "ts", "[", "'value'", "]", "[", "len", "(", "ts", "[", "'value'", "]", ")", "-...

31.28

19.12

async def get_contents(self, uri) -> List[Content]: """Request content listing recursively for the given URI. :param uri: URI for the source. :return: List of Content objects. """ contents = [ Content.make(**x) for x in await self.services["avContent"]["g...

[ "async", "def", "get_contents", "(", "self", ",", "uri", ")", "->", "List", "[", "Content", "]", ":", "contents", "=", "[", "Content", ".", "make", "(", "*", "*", "x", ")", "for", "x", "in", "await", "self", ".", "services", "[", "\"avContent\"", "...

36.666667

16.380952

def p_lvalue_partselect(self, p): 'lvalue : lpartselect' p[0] = Lvalue(p[1], lineno=p.lineno(1)) p.set_lineno(0, p.lineno(1))

[ "def", "p_lvalue_partselect", "(", "self", ",", "p", ")", ":", "p", "[", "0", "]", "=", "Lvalue", "(", "p", "[", "1", "]", ",", "lineno", "=", "p", ".", "lineno", "(", "1", ")", ")", "p", ".", "set_lineno", "(", "0", ",", "p", ".", "lineno", ...

36.5

7

def start_adc(self, channel, gain=1, data_rate=None): """Start continuous ADC conversions on the specified channel (0-3). Will return an initial conversion result, then call the get_last_result() function to read the most recent conversion result. Call stop_adc() to stop conversions. ...

[ "def", "start_adc", "(", "self", ",", "channel", ",", "gain", "=", "1", ",", "data_rate", "=", "None", ")", ":", "assert", "0", "<=", "channel", "<=", "3", ",", "'Channel must be a value within 0-3!'", "# Start continuous reads and set the mux value to the channel plu...

59.6

21.9

def qtable(columns, data, **meta): '''Creates a QTable out of given column names and data, and initialises the meta data. :class:`.QTable` is represented internally by `numpy.core.records.recarray`. Data for each column is converted to :class:`.QList` via :func:`.qlist` function. If qtype ind...

[ "def", "qtable", "(", "columns", ",", "data", ",", "*", "*", "meta", ")", ":", "if", "len", "(", "columns", ")", "!=", "len", "(", "data", ")", ":", "raise", "ValueError", "(", "'Number of columns doesn`t match the data layout. %s vs %s'", "%", "(", "len", ...

50.151163

33.662791

def explain_prediction_lightgbm( lgb, doc, vec=None, top=None, top_targets=None, target_names=None, targets=None, feature_names=None, feature_re=None, feature_filter=None, vectorized=False, ): """ Return an explanation of LightG...

[ "def", "explain_prediction_lightgbm", "(", "lgb", ",", "doc", ",", "vec", "=", "None", ",", "top", "=", "None", ",", "top_targets", "=", "None", ",", "target_names", "=", "None", ",", "targets", "=", "None", ",", "feature_names", "=", "None", ",", "featu...

36.621951

18.146341

def kmc(forward_in, database_name, min_occurrences=1, reverse_in='NA', k=31, cleanup=True, returncmd=False, tmpdir='tmp', **kwargs): """ Runs kmc to count kmers. :param forward_in: Forward input reads. Assumed to be fastq. :param database_name: Name for output kmc database. :param min_occurr...

[ "def", "kmc", "(", "forward_in", ",", "database_name", ",", "min_occurrences", "=", "1", ",", "reverse_in", "=", "'NA'", ",", "k", "=", "31", ",", "cleanup", "=", "True", ",", "returncmd", "=", "False", ",", "tmpdir", "=", "'tmp'", ",", "*", "*", "kw...

49.926829

21.878049

def parse_public(data): """ Loads a public key from a DER or PEM-formatted file. Supports RSA, DSA and EC public keys. For RSA keys, both the old RSAPublicKey and SubjectPublicKeyInfo structures are supported. Also allows extracting a public key from an X.509 certificate. :param data: A...

[ "def", "parse_public", "(", "data", ")", ":", "if", "not", "isinstance", "(", "data", ",", "byte_cls", ")", ":", "raise", "TypeError", "(", "pretty_message", "(", "'''\n data must be a byte string, not %s\n '''", ",", "type_name", "(", "data", ...

33.042254

21.71831

def graph_to_dot(graph, node_renderer=None, edge_renderer=None): """Produces a DOT specification string from the provided graph.""" node_pairs = list(graph.nodes.items()) edge_pairs = list(graph.edges.items()) if node_renderer is None: node_renderer_wrapper = lambda nid: '' else: no...

[ "def", "graph_to_dot", "(", "graph", ",", "node_renderer", "=", "None", ",", "edge_renderer", "=", "None", ")", ":", "node_pairs", "=", "list", "(", "graph", ".", "nodes", ".", "items", "(", ")", ")", "edge_pairs", "=", "list", "(", "graph", ".", "edge...

32.344828

18.965517

def _get_geneid2nt(nts): """Get geneid2nt given a list of namedtuples.""" geneid2nt = {} for ntd in nts: geneid = ntd.GeneID if geneid not in geneid2nt: geneid2nt[geneid] = ntd else: print("DUPLICATE GeneID FOUND {N:9} {SYM}".fo...

[ "def", "_get_geneid2nt", "(", "nts", ")", ":", "geneid2nt", "=", "{", "}", "for", "ntd", "in", "nts", ":", "geneid", "=", "ntd", ".", "GeneID", "if", "geneid", "not", "in", "geneid2nt", ":", "geneid2nt", "[", "geneid", "]", "=", "ntd", "else", ":", ...

36.7

15.3

def pair_is_consistent(graph: BELGraph, u: BaseEntity, v: BaseEntity) -> Optional[str]: """Return if the edges between the given nodes are consistent, meaning they all have the same relation. :return: If the edges aren't consistent, return false, otherwise return the relation type """ relations = {data...

[ "def", "pair_is_consistent", "(", "graph", ":", "BELGraph", ",", "u", ":", "BaseEntity", ",", "v", ":", "BaseEntity", ")", "->", "Optional", "[", "str", "]", ":", "relations", "=", "{", "data", "[", "RELATION", "]", "for", "data", "in", "graph", "[", ...

39

26.818182

def _get_api_params(api_url=None, page_id=None, api_key=None, api_version=None): ''' Retrieve the API params from the config file. ''' statuspage_cfg = __salt__['config.get']('statuspage') if not statuspage_cfg: statuspage_cfg = {} ...

[ "def", "_get_api_params", "(", "api_url", "=", "None", ",", "page_id", "=", "None", ",", "api_key", "=", "None", ",", "api_version", "=", "None", ")", ":", "statuspage_cfg", "=", "__salt__", "[", "'config.get'", "]", "(", "'statuspage'", ")", "if", "not", ...

40.6875

23.0625

def AnalizarAutorizarCertificadoResp(self, ret): "Metodo interno para extraer datos de la Respuesta de Certificación" aut = ret.get('autorizacion') if aut: self.PtoEmision = aut['ptoEmision'] self.NroOrden = aut['nroOrden'] self.FechaCertificacion = str(aut.ge...

[ "def", "AnalizarAutorizarCertificadoResp", "(", "self", ",", "ret", ")", ":", "aut", "=", "ret", ".", "get", "(", "'autorizacion'", ")", "if", "aut", ":", "self", ".", "PtoEmision", "=", "aut", "[", "'ptoEmision'", "]", "self", ".", "NroOrden", "=", "aut...

63.689922

28.356589

def close(self): """ Stop the server. """ logger.info("Stop server") self.stopped.set() for event in self.to_be_stopped: event.set() self._socket.close()

[ "def", "close", "(", "self", ")", ":", "logger", ".", "info", "(", "\"Stop server\"", ")", "self", ".", "stopped", ".", "set", "(", ")", "for", "event", "in", "self", ".", "to_be_stopped", ":", "event", ".", "set", "(", ")", "self", ".", "_socket", ...

21.3

12.9

def get_submission_archive(self, submissions, sub_folders, aggregations, archive_file=None): """ :param submissions: a list of submissions :param sub_folders: possible values: []: put all submissions in / ['taskid']: put all submissions for each task in a different direct...

[ "def", "get_submission_archive", "(", "self", ",", "submissions", ",", "sub_folders", ",", "aggregations", ",", "archive_file", "=", "None", ")", ":", "tmpfile", "=", "archive_file", "if", "archive_file", "is", "not", "None", "else", "tempfile", ".", "TemporaryF...

54.206186

29.649485

def _check_for_more_pages(self): """ Check for more pages. The last item will be sliced off. """ self._has_more = len(self._items) > self.per_page self._items = self._items[0 : self.per_page]

[ "def", "_check_for_more_pages", "(", "self", ")", ":", "self", ".", "_has_more", "=", "len", "(", "self", ".", "_items", ")", ">", "self", ".", "per_page", "self", ".", "_items", "=", "self", ".", "_items", "[", "0", ":", "self", ".", "per_page", "]"...

32.285714

14.285714

def collapse_nodes_with_same_names(graph: BELGraph) -> None: """Collapse all nodes with the same name, merging namespaces by picking first alphabetical one.""" survivor_mapping = defaultdict(set) # Collapse mapping dict victims = set() # Things already mapped while iterating it = tqdm(itt.combinations(...

[ "def", "collapse_nodes_with_same_names", "(", "graph", ":", "BELGraph", ")", "->", "None", ":", "survivor_mapping", "=", "defaultdict", "(", "set", ")", "# Collapse mapping dict", "victims", "=", "set", "(", ")", "# Things already mapped while iterating", "it", "=", ...

38.444444

24.074074

def get(self, resource, **params): """ Generic TeleSign REST API GET handler. :param resource: The partial resource URI to perform the request against, as a string. :param params: Body params to perform the GET request with, as a dictionary. :return: The RestClient Response obje...

[ "def", "get", "(", "self", ",", "resource", ",", "*", "*", "params", ")", ":", "return", "self", ".", "_execute", "(", "self", ".", "session", ".", "get", ",", "'GET'", ",", "resource", ",", "*", "*", "params", ")" ]

44.555556

21.222222

async def select_page(self, info: SQLQueryInfo, size=1, page=1) -> Tuple[Tuple[DataRecord, ...], int]: """ Select from database :param info: :param size: -1 means infinite :param page: :param need_count: if True, get count as second return value, otherwise -1 :ret...

[ "async", "def", "select_page", "(", "self", ",", "info", ":", "SQLQueryInfo", ",", "size", "=", "1", ",", "page", "=", "1", ")", "->", "Tuple", "[", "Tuple", "[", "DataRecord", ",", "...", "]", ",", "int", "]", ":", "raise", "NotImplementedError", "(...

37.8

17.2

def _ofind(self, oname, namespaces=None): """Find an object in the available namespaces. self._ofind(oname) -> dict with keys: found,obj,ospace,ismagic Has special code to detect magic functions. """ oname = oname.strip() #print '1- oname: <%r>' % oname # dbg i...

[ "def", "_ofind", "(", "self", ",", "oname", ",", "namespaces", "=", "None", ")", ":", "oname", "=", "oname", ".", "strip", "(", ")", "#print '1- oname: <%r>' % oname # dbg", "if", "not", "oname", ".", "startswith", "(", "ESC_MAGIC", ")", "and", "not", "on...

42.585106

18.021277

def _send(self, email_message): """A helper method that does the actual sending.""" if not email_message.recipients(): return False from_email = email_message.from_email recipients = email_message.recipients() try: self.connection.messages.create( to=recipients, from_=from_email, body=email_...

[ "def", "_send", "(", "self", ",", "email_message", ")", ":", "if", "not", "email_message", ".", "recipients", "(", ")", ":", "return", "False", "from_email", "=", "email_message", ".", "from_email", "recipients", "=", "email_message", ".", "recipients", "(", ...

24.176471

16.705882

def load(self): """Read the store dict from file""" with open(self.store_file_path, 'r') as fh: self.store = json.loads(fh.read())

[ "def", "load", "(", "self", ")", ":", "with", "open", "(", "self", ".", "store_file_path", ",", "'r'", ")", "as", "fh", ":", "self", ".", "store", "=", "json", ".", "loads", "(", "fh", ".", "read", "(", ")", ")" ]

31

16.4

def status(gandi, service): """Display current status from status.gandi.net.""" if not service: global_status = gandi.status.status() if global_status['status'] == 'FOGGY': # something is going on but not affecting services filters = { 'category': 'Incide...

[ "def", "status", "(", "gandi", ",", "service", ")", ":", "if", "not", "service", ":", "global_status", "=", "gandi", ".", "status", ".", "status", "(", ")", "if", "global_status", "[", "'status'", "]", "==", "'FOGGY'", ":", "# something is going on but not a...

34.636364

16.522727

def body(self, frame): """ Creates the dialog body. Returns the widget that should have initial focus. """ master = Frame(self) master.pack(padx=5, pady=0, expand=1, fill=BOTH) title = Label(master, text="Buses") title.pack(side=TOP) bus_lb = self.bu...

[ "def", "body", "(", "self", ",", "frame", ")", ":", "master", "=", "Frame", "(", "self", ")", "master", ".", "pack", "(", "padx", "=", "5", ",", "pady", "=", "0", ",", "expand", "=", "1", ",", "fill", "=", "BOTH", ")", "title", "=", "Label", ...

27.952381

19.238095

def p_subind_TO(p): """ substr : LP TO RP """ p[0] = (make_typecast(TYPE.uinteger, make_number(0, lineno=p.lineno(2)), p.lineno(1)), make_typecast(TYPE.uinteger, make_number(gl.MAX_STRSLICE_IDX, lineno=p.lineno(3)), ...

[ "def", "p_subind_TO", "(", "p", ")", ":", "p", "[", "0", "]", "=", "(", "make_typecast", "(", "TYPE", ".", "uinteger", ",", "make_number", "(", "0", ",", "lineno", "=", "p", ".", "lineno", "(", "2", ")", ")", ",", "p", ".", "lineno", "(", "1", ...

38.777778

9.222222

def __x_google_quota_descriptor(self, metric_costs): """Describes the metric costs for a call. Args: metric_costs: Dict of metric definitions to the integer cost value against that metric. Returns: A dict descriptor describing the Quota limits for the endpoint. """ return { ...

[ "def", "__x_google_quota_descriptor", "(", "self", ",", "metric_costs", ")", ":", "return", "{", "'metricCosts'", ":", "{", "metric", ":", "cost", "for", "(", "metric", ",", "cost", ")", "in", "metric_costs", ".", "items", "(", ")", "}", "}", "if", "metr...

29.133333

23.4

def tags(self, where, archiver="", timeout=DEFAULT_TIMEOUT): """ Retrieves tags for all streams matching the given WHERE clause Arguments: [where]: the where clause (e.g. 'path like "keti"', 'SourceName = "TED Main"') [archiver]: if specified, this is the archiver to use. Else, ...

[ "def", "tags", "(", "self", ",", "where", ",", "archiver", "=", "\"\"", ",", "timeout", "=", "DEFAULT_TIMEOUT", ")", ":", "return", "self", ".", "query", "(", "\"select * where {0}\"", ".", "format", "(", "where", ")", ",", "archiver", ",", "timeout", ")...

54

30.545455

def pwarning(*args, **kwargs): """print formatted output to stderr with indentation control""" if should_msg(kwargs.get("groups", ["warning"])): # initialize colorama only if uninitialized global colorama_init if not colorama_init: colorama_init = True colorama.i...

[ "def", "pwarning", "(", "*", "args", ",", "*", "*", "kwargs", ")", ":", "if", "should_msg", "(", "kwargs", ".", "get", "(", "\"groups\"", ",", "[", "\"warning\"", "]", ")", ")", ":", "# initialize colorama only if uninitialized", "global", "colorama_init", "...

32.058824

14

def add_element(self, name, ns_uri=None, attributes=None, text=None, before_this_element=False): """ Add a new child element to this element, with an optional namespace definition. If no namespace is provided the child will be assigned to the default namespace. :para...

[ "def", "add_element", "(", "self", ",", "name", ",", "ns_uri", "=", "None", ",", "attributes", "=", "None", ",", "text", "=", "None", ",", "before_this_element", "=", "False", ")", ":", "# Determine local name, namespace and prefix info from tag name", "prefix", "...

49.736111

19.708333

def str2int(self, str_value): """Conversion class name string => integer.""" str_value = tf.compat.as_text(str_value) if self._str2int: return self._str2int[str_value] # No names provided, try to integerize failed_parse = False try: int_value = int(str_value) except ValueError: ...

[ "def", "str2int", "(", "self", ",", "str_value", ")", ":", "str_value", "=", "tf", ".", "compat", ".", "as_text", "(", "str_value", ")", "if", "self", ".", "_str2int", ":", "return", "self", ".", "_str2int", "[", "str_value", "]", "# No names provided, try...

32.2

15.8

def UpdateHuntOutputPluginState(self, hunt_id, state_index, update_fn): """Updates hunt output plugin state for a given output plugin.""" if hunt_id not in self.hunts: raise db.UnknownHuntError(hunt_id) try: state = rdf_flow_runner.OutputPluginState.FromSerializedString( self.hunt_ou...

[ "def", "UpdateHuntOutputPluginState", "(", "self", ",", "hunt_id", ",", "state_index", ",", "update_fn", ")", ":", "if", "hunt_id", "not", "in", "self", ".", "hunts", ":", "raise", "db", ".", "UnknownHuntError", "(", "hunt_id", ")", "try", ":", "state", "=...

34.166667

22.555556

def _build_brokers(self, brokers): """Build broker objects using broker-ids.""" for broker_id, metadata in six.iteritems(brokers): self.brokers[broker_id] = self._create_broker(broker_id, metadata)

[ "def", "_build_brokers", "(", "self", ",", "brokers", ")", ":", "for", "broker_id", ",", "metadata", "in", "six", ".", "iteritems", "(", "brokers", ")", ":", "self", ".", "brokers", "[", "broker_id", "]", "=", "self", ".", "_create_broker", "(", "broker_...

55.5

15.5

def form_invalid(self, form, prefix=None): """ If form invalid return error list in JSON response """ response = super(FormAjaxMixin, self).form_invalid(form) if self.request.is_ajax(): data = { "errors_list": self.add_prefix(form.errors, prefix), } ...

[ "def", "form_invalid", "(", "self", ",", "form", ",", "prefix", "=", "None", ")", ":", "response", "=", "super", "(", "FormAjaxMixin", ",", "self", ")", ".", "form_invalid", "(", "form", ")", "if", "self", ".", "request", ".", "is_ajax", "(", ")", ":...

47.6

19

def pack_int(v): """ Returns <v> as packed string. """ if v == 0: return "\0" ret = '' while v > 0: c = v & 127 v >>= 7 if v != 0: c = c | 128 ret += chr(c) return ret

[ "def", "pack_int", "(", "v", ")", ":", "if", "v", "==", "0", ":", "return", "\"\\0\"", "ret", "=", "''", "while", "v", ">", "0", ":", "c", "=", "v", "&", "127", "v", ">>=", "7", "if", "v", "!=", "0", ":", "c", "=", "c", "|", "128", "ret",...

19

21.083333

def handler(self): 'Handler function' from feedjack import filters # shouldn't be imported globally, as they may depend on models proc_func = getattr(filters, self.handler_name or self.name, None) if proc_func is None: if '.' not in self.handler_name: raise ImportError('Processing function not available:...

[ "def", "handler", "(", "self", ")", ":", "from", "feedjack", "import", "filters", "# shouldn't be imported globally, as they may depend on models", "proc_func", "=", "getattr", "(", "filters", ",", "self", ".", "handler_name", "or", "self", ".", "name", ",", "None",...

51.8

29

def filter_aliases(alias_table): """ Filter aliases that does not have a command field in the configuration file. Args: alias_table: The alias table. Yield: A tuple with [0] being the first word of the alias and [1] being the command that the alias points to. """ for al...

[ "def", "filter_aliases", "(", "alias_table", ")", ":", "for", "alias", "in", "alias_table", ".", "sections", "(", ")", ":", "if", "alias_table", ".", "has_option", "(", "alias", ",", "'command'", ")", ":", "yield", "(", "alias", ".", "split", "(", ")", ...

35.071429

21.5

def check_node(self, tup_tree, nodename, required_attrs=None, optional_attrs=None, allowed_children=None, allow_pcdata=False): # pylint: disable=too-many-branches """ Check static local constraints on a tuple tree node. The node must have the given ...

[ "def", "check_node", "(", "self", ",", "tup_tree", ",", "nodename", ",", "required_attrs", "=", "None", ",", "optional_attrs", "=", "None", ",", "allowed_children", "=", "None", ",", "allow_pcdata", "=", "False", ")", ":", "# pylint: disable=too-many-branches", ...

42.588235

19.576471

def beta(returns, factor_returns, risk_free=0.0, out=None): """Calculates beta. Parameters ---------- returns : pd.Series Daily returns of the strategy, noncumulative. - See full explanation in :func:`~empyrical.stats.cum_returns`. factor_returns : pd.Series Daily noncumula...

[ "def", "beta", "(", "returns", ",", "factor_returns", ",", "risk_free", "=", "0.0", ",", "out", "=", "None", ")", ":", "if", "not", "(", "isinstance", "(", "returns", ",", "np", ".", "ndarray", ")", "and", "isinstance", "(", "factor_returns", ",", "np"...

32.545455

19.818182

def after_retract(analysis): """Function triggered after a 'retract' transition for the analysis passed in is performed. The analysis transitions to "retracted" state and a new copy of the analysis is created. The copy initial state is "unassigned", unless the the retracted analysis was assigned to a wo...

[ "def", "after_retract", "(", "analysis", ")", ":", "# Retract our dependents (analyses that depend on this analysis)", "cascade_to_dependents", "(", "analysis", ",", "\"retract\"", ")", "# Retract our dependencies (analyses this analysis depends on)", "promote_to_dependencies", "(", ...

43.232558

19.906977

def system_add_keyspace(self, ks_def): """ adds a keyspace and any column families that are part of it. returns the new schema id. Parameters: - ks_def """ self._seqid += 1 d = self._reqs[self._seqid] = defer.Deferred() self.send_system_add_keyspace(ks_def) return d

[ "def", "system_add_keyspace", "(", "self", ",", "ks_def", ")", ":", "self", ".", "_seqid", "+=", "1", "d", "=", "self", ".", "_reqs", "[", "self", ".", "_seqid", "]", "=", "defer", ".", "Deferred", "(", ")", "self", ".", "send_system_add_keyspace", "("...

26.727273

18.545455

def secret_absent(name, namespace='default', **kwargs): ''' Ensures that the named secret is absent from the given namespace. name The name of the secret namespace The name of the namespace ''' ret = {'name': name, 'changes': {}, 'result': False, ...

[ "def", "secret_absent", "(", "name", ",", "namespace", "=", "'default'", ",", "*", "*", "kwargs", ")", ":", "ret", "=", "{", "'name'", ":", "name", ",", "'changes'", ":", "{", "}", ",", "'result'", ":", "False", ",", "'comment'", ":", "''", "}", "s...

28.076923

23.512821

def blueprint(blueprint_name): """ create and register a blueprint """ app = os.getcwd().split('/')[-1] if app != 'app': logger.warning('''\033[31m{Warning}\033[0m ==> your current path is \033[32m%s\033[0m\n ==> please create your blueprint under app folder!''' % os.getcwd()) exit(1...

[ "def", "blueprint", "(", "blueprint_name", ")", ":", "app", "=", "os", ".", "getcwd", "(", ")", ".", "split", "(", "'/'", ")", "[", "-", "1", "]", "if", "app", "!=", "'app'", ":", "logger", ".", "warning", "(", "'''\\033[31m{Warning}\\033[0m\n==> your cu...

30.735849

16.849057

def stop(self): """Stop the name server. """ self.listener.setsockopt(LINGER, 1) self.loop = False with nslock: self.listener.close()

[ "def", "stop", "(", "self", ")", ":", "self", ".", "listener", ".", "setsockopt", "(", "LINGER", ",", "1", ")", "self", ".", "loop", "=", "False", "with", "nslock", ":", "self", ".", "listener", ".", "close", "(", ")" ]

25.571429

10

def runSearchVariantAnnotations(self, request): """ Runs the specified SearchVariantAnnotationsRequest. """ return self.runSearchRequest( request, protocol.SearchVariantAnnotationsRequest, protocol.SearchVariantAnnotationsResponse, self.variantAnnotati...

[ "def", "runSearchVariantAnnotations", "(", "self", ",", "request", ")", ":", "return", "self", ".", "runSearchRequest", "(", "request", ",", "protocol", ".", "SearchVariantAnnotationsRequest", ",", "protocol", ".", "SearchVariantAnnotationsResponse", ",", "self", ".",...

40.75

8.75

def variable_declaration(self): """ variable_declaration: 'let' assignment ';' """ self._process(Nature.LET) node = VariableDeclaration(assignment=self.assignment()) self._process(Nature.SEMI) return node

[ "def", "variable_declaration", "(", "self", ")", ":", "self", ".", "_process", "(", "Nature", ".", "LET", ")", "node", "=", "VariableDeclaration", "(", "assignment", "=", "self", ".", "assignment", "(", ")", ")", "self", ".", "_process", "(", "Nature", "...

31.625

9.625

def calculate_oobatake_dS(seq, temp): """Get dS using Oobatake method in units cal/mol. Args: seq (str, Seq, SeqRecord): Amino acid sequence temp (float): Temperature in degrees C Returns: float: dS in units cal/mol """ seq = ssbio.protein.sequence.utils.cast_to_str(seq) ...

[ "def", "calculate_oobatake_dS", "(", "seq", ",", "temp", ")", ":", "seq", "=", "ssbio", ".", "protein", ".", "sequence", ".", "utils", ".", "cast_to_str", "(", "seq", ")", "dS", "=", "0", "temp", "+=", "273.15", "T0", "=", "298.15", "dCp_sum", "=", "...

22.772727

20.136364

def _get_separated_values(self, secondary=False): """Separate values between odd and even series stacked""" series = self.secondary_series if secondary else self.series positive_vals = map( sum, zip( *[ serie.safe_values for index, seri...

[ "def", "_get_separated_values", "(", "self", ",", "secondary", "=", "False", ")", ":", "series", "=", "self", ".", "secondary_series", "if", "secondary", "else", "self", ".", "series", "positive_vals", "=", "map", "(", "sum", ",", "zip", "(", "*", "[", "...

31.318182

20.909091

def read_byte(self, do_ord=True) -> int: """ Read a single byte. Args: do_ord (bool): (default True) convert the byte to an ordinal first. Returns: bytes: a single byte if successful. 0 (int) if an exception occurred. """ try: if do_ord...

[ "def", "read_byte", "(", "self", ",", "do_ord", "=", "True", ")", "->", "int", ":", "try", ":", "if", "do_ord", ":", "return", "ord", "(", "self", ".", "stream", ".", "read", "(", "1", ")", ")", "else", ":", "return", "self", ".", "stream", ".", ...

34.4

17.333333

def use_comparative_assessment_taken_view(self): """Pass through to provider AssessmentTakenLookupSession.use_comparative_assessment_taken_view""" self._object_views['assessment_taken'] = COMPARATIVE # self._get_provider_session('assessment_taken_lookup_session') # To make sure the session is tr...

[ "def", "use_comparative_assessment_taken_view", "(", "self", ")", ":", "self", ".", "_object_views", "[", "'assessment_taken'", "]", "=", "COMPARATIVE", "# self._get_provider_session('assessment_taken_lookup_session') # To make sure the session is tracked", "for", "session", "in", ...

56.444444

20.333333

def add_error(cls, queue_name, job, error, when=None, trace=None, **additional_fields): """ Add a new error in redis. `job` is a job which generated the error `queue_name` is the name of the queue where the error arrived `er...

[ "def", "add_error", "(", "cls", ",", "queue_name", ",", "job", ",", "error", ",", "when", "=", "None", ",", "trace", "=", "None", ",", "*", "*", "additional_fields", ")", ":", "if", "when", "is", "None", ":", "when", "=", "datetime", ".", "utcnow", ...

34.212766

19.531915

def _pre_process_call(self, name="Unknown", endpoint_params=None): """ This is called by the method_decorator within the Endpoint. The point is to capture a slot for the endpoint.method to put it's final _calls. It also allows for some special new arguments that will be extracted...

[ "def", "_pre_process_call", "(", "self", ",", "name", "=", "\"Unknown\"", ",", "endpoint_params", "=", "None", ")", ":", "call_temps", "=", "self", ".", "_call_temps", ".", "get", "(", "self", ".", "_get_thread_id", "(", ")", ",", "None", ")", "call_params...

41.25

18.557692

def execute_policy(self, policy): """ Executes the specified policy for this scaling group. """ return self.manager.execute_policy(scaling_group=self, policy=policy)

[ "def", "execute_policy", "(", "self", ",", "policy", ")", ":", "return", "self", ".", "manager", ".", "execute_policy", "(", "scaling_group", "=", "self", ",", "policy", "=", "policy", ")" ]

38.6

13

def get_max_length(self): """ Return the maximum length of the pianorolls along the time axis (in time step). Returns ------- max_length : int The maximum length of the pianorolls along the time axis (in time step). """ max_length...

[ "def", "get_max_length", "(", "self", ")", ":", "max_length", "=", "0", "for", "track", "in", "self", ".", "tracks", ":", "if", "max_length", "<", "track", ".", "pianoroll", ".", "shape", "[", "0", "]", ":", "max_length", "=", "track", ".", "pianoroll"...

28

20.117647

def _buildTemplates(self): """ OVERRIDING THIS METHOD from Factory """ c_mydict = build_class_json(self.ontospy_graph.all_classes) JSON_DATA_CLASSES = json.dumps(c_mydict) extra_context = { "ontograph": self.ontospy_graph, 'JSON_DATA_CL...

[ "def", "_buildTemplates", "(", "self", ")", ":", "c_mydict", "=", "build_class_json", "(", "self", ".", "ontospy_graph", ".", "all_classes", ")", "JSON_DATA_CLASSES", "=", "json", ".", "dumps", "(", "c_mydict", ")", "extra_context", "=", "{", "\"ontograph\"", ...

30.35

21.15

def create_new_migration_record(self): """ Create a new migration record for this migration set """ migration_record = self.migration_model( name=self.name, version=self.latest_migration) self.session.add(migration_record) self.session.commit()

[ "def", "create_new_migration_record", "(", "self", ")", ":", "migration_record", "=", "self", ".", "migration_model", "(", "name", "=", "self", ".", "name", ",", "version", "=", "self", ".", "latest_migration", ")", "self", ".", "session", ".", "add", "(", ...

34.222222

6.444444

def reset(self): """Deletes all entries in the cache area""" if self.collname not in self.current_kv_names(): return # nothing to do # we'll simply delete the entire collection and then re-create it. r = self.request('delete', self.url+"storage/collec...

[ "def", "reset", "(", "self", ")", ":", "if", "self", ".", "collname", "not", "in", "self", ".", "current_kv_names", "(", ")", ":", "return", "# nothing to do", "# we'll simply delete the entire collection and then re-create it.", "r", "=", "self", ".", "request", ...

43.777778

16.555556

def complete_session_endpoint(self, cmd_param_text, full_cmd, *rest): """ TODO: the hosts lists can be retrieved from self.zk.hosts """ complete_hosts = partial(complete_values, ["127.0.0.1:2181"]) completers = [self._complete_path, complete_hosts, complete_labeled_boolean("reverse")] re...

[ "def", "complete_session_endpoint", "(", "self", ",", "cmd_param_text", ",", "full_cmd", ",", "*", "rest", ")", ":", "complete_hosts", "=", "partial", "(", "complete_values", ",", "[", "\"127.0.0.1:2181\"", "]", ")", "completers", "=", "[", "self", ".", "_comp...

74.8

28.2

def welcome(self): """Personalized welcome page""" if not g.user or not g.user.get_id(): return redirect(appbuilder.get_url_for_login) welcome_dashboard_id = ( db.session .query(UserAttribute.welcome_dashboard_id) .filter_by(user_id=g.user.get_id(...

[ "def", "welcome", "(", "self", ")", ":", "if", "not", "g", ".", "user", "or", "not", "g", ".", "user", ".", "get_id", "(", ")", ":", "return", "redirect", "(", "appbuilder", ".", "get_url_for_login", ")", "welcome_dashboard_id", "=", "(", "db", ".", ...

31

18.4

def coordinates(self, x, y): '''return coordinates of a pixel in the map''' state = self.state return state.mt.coord_from_area(x, y, state.lat, state.lon, state.width, state.ground_width)

[ "def", "coordinates", "(", "self", ",", "x", ",", "y", ")", ":", "state", "=", "self", ".", "state", "return", "state", ".", "mt", ".", "coord_from_area", "(", "x", ",", "y", ",", "state", ".", "lat", ",", "state", ".", "lon", ",", "state", ".", ...

52

25

def match(self, version): """Check whether a Version satisfies the Spec.""" return all(spec.match(version) for spec in self.specs)

[ "def", "match", "(", "self", ",", "version", ")", ":", "return", "all", "(", "spec", ".", "match", "(", "version", ")", "for", "spec", "in", "self", ".", "specs", ")" ]

48

12.333333

def additionalProperties(self): """Schema for all additional properties, or False.""" value = self._schema.get("additionalProperties", {}) if not isinstance(value, dict) and value is not False: raise SchemaError( "additionalProperties value {0!r} is neither false nor"...

[ "def", "additionalProperties", "(", "self", ")", ":", "value", "=", "self", ".", "_schema", ".", "get", "(", "\"additionalProperties\"", ",", "{", "}", ")", "if", "not", "isinstance", "(", "value", ",", "dict", ")", "and", "value", "is", "not", "False", ...

47.25

14.375

def _values_of_same_type(self, val1, val2): """Checks if two values agree in type. Raises a TypeError if both values are not supported by the parameter. Returns false if only one of the two values is supported by the parameter. Example usage: >>>param._values_of_same_type(42,4...

[ "def", "_values_of_same_type", "(", "self", ",", "val1", ",", "val2", ")", ":", "if", "self", ".", "f_supports", "(", "val1", ")", "!=", "self", ".", "f_supports", "(", "val2", ")", ":", "return", "False", "if", "not", "self", ".", "f_supports", "(", ...

33.285714

25.214286

def get_file(self, file_hash, save_file_at, timeout=None): """ Get the scan results for a file. Even if you do not have a Private Mass API key that you can use, you can still download files from the VirusTotal storage making use of your VirusTotal Intelligence quota, i.e. programmatic downloads...

[ "def", "get_file", "(", "self", ",", "file_hash", ",", "save_file_at", ",", "timeout", "=", "None", ")", ":", "params", "=", "{", "'hash'", ":", "file_hash", ",", "'apikey'", ":", "self", ".", "api_key", "}", "try", ":", "response", "=", "requests", "....

46.518519

28.555556

def accel_prev(self, *args): """Callback to go to the previous tab. Called by the accel key. """ if self.get_notebook().get_current_page() == 0: self.get_notebook().set_current_page(self.get_notebook().get_n_pages() - 1) else: self.get_notebook().prev_page() ...

[ "def", "accel_prev", "(", "self", ",", "*", "args", ")", ":", "if", "self", ".", "get_notebook", "(", ")", ".", "get_current_page", "(", ")", "==", "0", ":", "self", ".", "get_notebook", "(", ")", ".", "set_current_page", "(", "self", ".", "get_noteboo...

40.875

15.625

def consume(self, length): """ >>> OutBuffer().add(b"spam").consume(2).getvalue() == b"am" True @type length: int @returns: self """ self.buff = io.BytesIO(self.getvalue()[length:]) return self

[ "def", "consume", "(", "self", ",", "length", ")", ":", "self", ".", "buff", "=", "io", ".", "BytesIO", "(", "self", ".", "getvalue", "(", ")", "[", "length", ":", "]", ")", "return", "self" ]

20.1

19.1

def getSignalParameters(fitParams, n_std=3): ''' return minimum, average, maximum of the signal peak ''' signal = getSignalPeak(fitParams) mx = signal[1] + n_std * signal[2] mn = signal[1] - n_std * signal[2] if mn < fitParams[0][1]: mn = fitParams[0][1] # set to bg ret...

[ "def", "getSignalParameters", "(", "fitParams", ",", "n_std", "=", "3", ")", ":", "signal", "=", "getSignalPeak", "(", "fitParams", ")", "mx", "=", "signal", "[", "1", "]", "+", "n_std", "*", "signal", "[", "2", "]", "mn", "=", "signal", "[", "1", ...

33.2

11.4

def get_context_data(self, **kwargs): """ We supplement the normal context data by adding our fields and labels. """ context = super(SmartView, self).get_context_data(**kwargs) # derive our field config self.field_config = self.derive_field_config() # add our fi...

[ "def", "get_context_data", "(", "self", ",", "*", "*", "kwargs", ")", ":", "context", "=", "super", "(", "SmartView", ",", "self", ")", ".", "get_context_data", "(", "*", "*", "kwargs", ")", "# derive our field config", "self", ".", "field_config", "=", "s...

34.214286

19.178571

def aniso_magic_nb(infile='specimens.txt', samp_file='samples.txt', site_file='sites.txt', verbose=True, ipar=False, ihext=True, ivec=False, isite=False, iloc=False, iboot=False, vec=0, Dir=[], PDir=[], crd="s", num_bootstraps=1000, dir_path=".", fignum=1, save_p...

[ "def", "aniso_magic_nb", "(", "infile", "=", "'specimens.txt'", ",", "samp_file", "=", "'samples.txt'", ",", "site_file", "=", "'sites.txt'", ",", "verbose", "=", "True", ",", "ipar", "=", "False", ",", "ihext", "=", "True", ",", "ivec", "=", "False", ",",...

43.164706

19.870588

def reset(self, new_session=True): """Clear all internal namespaces, and attempt to release references to user objects. If new_session is True, a new history session will be opened. """ # Clear histories self.history_manager.reset(new_session) # Reset counter use...

[ "def", "reset", "(", "self", ",", "new_session", "=", "True", ")", ":", "# Clear histories", "self", ".", "history_manager", ".", "reset", "(", "new_session", ")", "# Reset counter used to index all histories", "if", "new_session", ":", "self", ".", "execution_count...

34.340909

15.818182

def read_namespaced_replication_controller(self, name, namespace, **kwargs): # noqa: E501 """read_namespaced_replication_controller # noqa: E501 read the specified ReplicationController # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP...

[ "def", "read_namespaced_replication_controller", "(", "self", ",", "name", ",", "namespace", ",", "*", "*", "kwargs", ")", ":", "# noqa: E501", "kwargs", "[", "'_return_http_data_only'", "]", "=", "True", "if", "kwargs", ".", "get", "(", "'async_req'", ")", ":...

59.4

31.4

def _convert_slice_incement_inconsistencies(dicom_input): """ If there is slice increment inconsistency detected, for the moment CT images, then split the volumes into subvolumes based on the slice increment and process each volume separately using a space constructed based on the highest resolution increment ...

[ "def", "_convert_slice_incement_inconsistencies", "(", "dicom_input", ")", ":", "# Estimate the \"first\" slice increment based on the 2 first slices", "increment", "=", "numpy", ".", "array", "(", "dicom_input", "[", "0", "]", ".", "ImagePositionPatient", ")", "-", "nump...

55.25

30.472222

def register_child(cls, prop, child_cls): """ Register a new :class:`XMLStreamClass` instance `child_cls` for a given :class:`Child` descriptor `prop`. .. warning:: This method cannot be used after a class has been derived from this class. This is for consistency:...

[ "def", "register_child", "(", "cls", ",", "prop", ",", "child_cls", ")", ":", "if", "cls", ".", "__subclasses__", "(", ")", ":", "raise", "TypeError", "(", "\"register_child is forbidden on classes with subclasses\"", "\" (subclasses: {})\"", ".", "format", "(", "\"...

43.955556

25.911111

def remove(self, key, value): """ Removes the given key-value tuple from the multimap. **Warning: This method uses __hash__ and __eq__ methods of binary form of the key, not the actual implementations of __hash__ and __eq__ defined in key's class.** :param key: (object), the k...

[ "def", "remove", "(", "self", ",", "key", ",", "value", ")", ":", "check_not_none", "(", "key", ",", "\"key can't be None\"", ")", "check_not_none", "(", "key", ",", "\"value can't be None\"", ")", "key_data", "=", "self", ".", "_to_data", "(", "key", ")", ...

52.117647

26.588235

def check_rdd_dtype(rdd, expected_dtype): """Checks if the blocks in the RDD matches the expected types. Parameters: ----------- rdd: splearn.BlockRDD The RDD to check expected_dtype: {type, list of types, tuple of types, dict of types} Expected type(s). If the RDD is a DictRDD the ...

[ "def", "check_rdd_dtype", "(", "rdd", ",", "expected_dtype", ")", ":", "if", "not", "isinstance", "(", "rdd", ",", "BlockRDD", ")", ":", "raise", "TypeError", "(", "\"Expected {0} for parameter rdd, got {1}.\"", ".", "format", "(", "BlockRDD", ",", "type", "(", ...

35.333333

17.305556

def score_braycurtis(self, term1, term2, **kwargs): """ Compute a weighting score based on the "City Block" distance between the kernel density estimates of two terms. Args: term1 (str) term2 (str) Returns: float """ t1_kde = self.kde(t...

[ "def", "score_braycurtis", "(", "self", ",", "term1", ",", "term2", ",", "*", "*", "kwargs", ")", ":", "t1_kde", "=", "self", ".", "kde", "(", "term1", ",", "*", "*", "kwargs", ")", "t2_kde", "=", "self", ".", "kde", "(", "term2", ",", "*", "*", ...

24.470588

20.705882

def formatError(self, test, err): """Add captured log messages to error output. """ # logic flow copied from Capture.formatError test.capturedLogging = records = self.formatLogRecords() if not records: return err ec, ev, tb = err return (ec, self.addCa...

[ "def", "formatError", "(", "self", ",", "test", ",", "err", ")", ":", "# logic flow copied from Capture.formatError", "test", ".", "capturedLogging", "=", "records", "=", "self", ".", "formatLogRecords", "(", ")", "if", "not", "records", ":", "return", "err", ...

37.777778

12.444444

def kernel_config(): """Create a config object with IPython kernel options.""" import ipykernel from IPython.core.application import get_ipython_dir from traitlets.config.loader import Config, load_pyconfig_files # ---- IPython config ---- try: profile_path = osp.join(get_ipython_dir(),...

[ "def", "kernel_config", "(", ")", ":", "import", "ipykernel", "from", "IPython", ".", "core", ".", "application", "import", "get_ipython_dir", "from", "traitlets", ".", "config", ".", "loader", "import", "Config", ",", "load_pyconfig_files", "# ---- IPython config -...

37.213873

17.751445

def newNsProp(self, node, name, value): """Create a new property tagged with a namespace and carried by a node. """ if node is None: node__o = None else: node__o = node._o ret = libxml2mod.xmlNewNsProp(node__o, self._o, name, value) if ret is None:raise treeError('xmlN...

[ "def", "newNsProp", "(", "self", ",", "node", ",", "name", ",", "value", ")", ":", "if", "node", "is", "None", ":", "node__o", "=", "None", "else", ":", "node__o", "=", "node", ".", "_o", "ret", "=", "libxml2mod", ".", "xmlNewNsProp", "(", "node__o",...

42.888889

9.888889

def Nu_Jackson(Re, Pr, rho_w=None, rho_b=None, Cp_avg=None, Cp_b=None, T_b=None, T_w=None, T_pc=None): r'''Calculates internal convection Nusselt number for turbulent vertical upward flow in a pipe under supercritical conditions according to [1]_. .. math:: Nu_b = 0.0183 Re_b...

[ "def", "Nu_Jackson", "(", "Re", ",", "Pr", ",", "rho_w", "=", "None", ",", "rho_b", "=", "None", ",", "Cp_avg", "=", "None", ",", "Cp_b", "=", "None", ",", "T_b", "=", "None", ",", "T_w", "=", "None", ",", "T_pc", "=", "None", ")", ":", "if", ...

38.346535

23.950495

def is_none_or(self): """ Ensures :attr:`subject` is either ``None``, or satisfies subsequent (chained) conditions:: Ensure(None).is_none_or.is_an(int) """ if self._subject is None: return NoOpInspector(subject=self._subject, error_factory=self._error_factory) ...

[ "def", "is_none_or", "(", "self", ")", ":", "if", "self", ".", "_subject", "is", "None", ":", "return", "NoOpInspector", "(", "subject", "=", "self", ".", "_subject", ",", "error_factory", "=", "self", ".", "_error_factory", ")", "else", ":", "return", "...

34.6

22.4

def settings_system_update(self, data): """ Set system settings. Uses PUT to /settings/system interface :Args: * *data*: (dict) Settings dictionary as specified `here <https://cloud.knuverse.com/docs/api/#api-System_Settings-Set_System_Settings>`_. :Returns: None "...

[ "def", "settings_system_update", "(", "self", ",", "data", ")", ":", "data", "[", "\"auth_password\"", "]", "=", "self", ".", "_password", "response", "=", "self", ".", "_put", "(", "url", ".", "settings_system", ",", "body", "=", "data", ")", "self", "....

35.615385

25.461538

def _parse_example_spec(self): """Returns a `tf.Example` parsing spec as dict.""" height, width = image_util.get_expected_image_size(self.module_spec) input_shape = [height, width, 3] return {self.key: tf_v1.FixedLenFeature(input_shape, tf.float32)}

[ "def", "_parse_example_spec", "(", "self", ")", ":", "height", ",", "width", "=", "image_util", ".", "get_expected_image_size", "(", "self", ".", "module_spec", ")", "input_shape", "=", "[", "height", ",", "width", ",", "3", "]", "return", "{", "self", "."...

52.2

15

def load_sound_font(self, sf2): """Load a sound font. Return True on success, False on failure. This function should be called before your audio can be played, since the instruments are kept in the sf2 file. """ self.sfid = self.fs.sfload(sf2) return not self.sf...

[ "def", "load_sound_font", "(", "self", ",", "sf2", ")", ":", "self", ".", "sfid", "=", "self", ".", "fs", ".", "sfload", "(", "sf2", ")", "return", "not", "self", ".", "sfid", "==", "-", "1" ]

31.9

15.1

def _get_binary(self): """ find binaries available""" ## check for binary backup_binaries = ["raxmlHPC-PTHREADS", "raxmlHPC-PTHREADS-SSE3"] ## check user binary first, then backups for binary in [self.params.binary] + backup_binaries: proc = subprocess.Popen(["which...

[ "def", "_get_binary", "(", "self", ")", ":", "## check for binary", "backup_binaries", "=", "[", "\"raxmlHPC-PTHREADS\"", ",", "\"raxmlHPC-PTHREADS-SSE3\"", "]", "## check user binary first, then backups", "for", "binary", "in", "[", "self", ".", "params", ".", "binary"...

36.666667

19.111111

def cast(keys, data): """Cast a set of keys and an array to a Matrix object.""" matrix = Matrix() matrix.keys = keys matrix.data = data return matrix

[ "def", "cast", "(", "keys", ",", "data", ")", ":", "matrix", "=", "Matrix", "(", ")", "matrix", ".", "keys", "=", "keys", "matrix", ".", "data", "=", "data", "return", "matrix" ]

30.666667

13.5

def slot_add_binding(self, slot_number, adapter): """ Adds a slot binding (a module into a slot). :param slot_number: slot number :param adapter: device to add in the corresponding slot """ try: slot = self._slots[slot_number] except IndexError: ...

[ "def", "slot_add_binding", "(", "self", ",", "slot_number", ",", "adapter", ")", ":", "try", ":", "slot", "=", "self", ".", "_slots", "[", "slot_number", "]", "except", "IndexError", ":", "raise", "DynamipsError", "(", "'Slot {slot_number} does not exist on router...

65.354167

48.1875

def _ParseTokenType(self, file_object, file_offset): """Parses a token type. Args: file_object (dfvfs.FileIO): file-like object. file_offset (int): offset of the token relative to the start of the file-like object. Returns: int: token type """ token_type_map = self._Get...

[ "def", "_ParseTokenType", "(", "self", ",", "file_object", ",", "file_offset", ")", ":", "token_type_map", "=", "self", ".", "_GetDataTypeMap", "(", "'uint8'", ")", "token_type", ",", "_", "=", "self", ".", "_ReadStructureFromFileObject", "(", "file_object", ","...

26.647059

20.647059

def timeseries(self): """ Feed-in time series of generator It returns the actual time series used in power flow analysis. If :attr:`_timeseries` is not :obj:`None`, it is returned. Otherwise, :meth:`timeseries` looks for generation and curtailment time series of the acco...

[ "def", "timeseries", "(", "self", ")", ":", "if", "self", ".", "_timeseries", "is", "None", ":", "# get time series for active power depending on if they are", "# differentiated by weather cell ID or not", "if", "isinstance", "(", "self", ".", "grid", ".", "network", "....

42.2

21.153846

def _imm_repr(self): ''' The default representation function for an immutable object. ''' return (type(self).__name__ + ('(' if _imm_is_persist(self) else '*(') + ', '.join([k + '=' + str(v) for (k,v) in six.iteritems(imm_params(self))]) + ')')

[ "def", "_imm_repr", "(", "self", ")", ":", "return", "(", "type", "(", "self", ")", ".", "__name__", "+", "(", "'('", "if", "_imm_is_persist", "(", "self", ")", "else", "'*('", ")", "+", "', '", ".", "join", "(", "[", "k", "+", "'='", "+", "str",...

36.125

25.375

def _sigma_ee_rel(self, gam, eps): """ Eq. A1, A4 of Baring et al. (1999) Use for Ee > 2 MeV """ A = 1 - 8 / 3 * (gam - 1) ** 0.2 / (gam + 1) * (eps / gam) ** ( 1.0 / 3.0 ) return (self._sigma_1(gam, eps) + self._sigma_2(gam, eps)) * A

[ "def", "_sigma_ee_rel", "(", "self", ",", "gam", ",", "eps", ")", ":", "A", "=", "1", "-", "8", "/", "3", "*", "(", "gam", "-", "1", ")", "**", "0.2", "/", "(", "gam", "+", "1", ")", "*", "(", "eps", "/", "gam", ")", "**", "(", "1.0", "...

29.5

17.3

def vars(self): """Alternative naming, you can use `node.vars.name` instead of `node.v_name`""" if self._vars is None: self._vars = NNTreeNodeVars(self) return self._vars

[ "def", "vars", "(", "self", ")", ":", "if", "self", ".", "_vars", "is", "None", ":", "self", ".", "_vars", "=", "NNTreeNodeVars", "(", "self", ")", "return", "self", ".", "_vars" ]

40.4

11

def count_protein_group_hits(lineproteins, groups): """Takes a list of protein accessions and a list of protein groups content from DB. Counts for each group in list how many proteins are found in lineproteins. Returns list of str amounts. """ hits = [] for group in groups: hits.append(0...

[ "def", "count_protein_group_hits", "(", "lineproteins", ",", "groups", ")", ":", "hits", "=", "[", "]", "for", "group", "in", "groups", ":", "hits", ".", "append", "(", "0", ")", "for", "protein", "in", "lineproteins", ":", "if", "protein", "in", "group"...

37

12.416667

def _create_request_schema(self, params, required): """Create a JSON schema for a request. :param list params: A list of keys specifying which definitions from the base schema should be allowed in the request. :param list required: A subset of the params that the requester must ...

[ "def", "_create_request_schema", "(", "self", ",", "params", ",", "required", ")", ":", "# We allow additional properties because the data this will validate", "# may also include kwargs passed by decorators on the handler method.", "schema", "=", "{", "'additionalProperties'", ":", ...

45.95

16.1

def _get_visit_name(self): """ return the visit name for the mixed class. When calling 'accept', the method <'visit_' + name returned by this method> will be called on the visitor """ try: # pylint: disable=no-member return self.TYPE.replace("-", "...

[ "def", "_get_visit_name", "(", "self", ")", ":", "try", ":", "# pylint: disable=no-member", "return", "self", ".", "TYPE", ".", "replace", "(", "\"-\"", ",", "\"_\"", ")", "# pylint: disable=broad-except", "except", "Exception", ":", "return", "self", ".", "__cl...

35.666667

14.666667

def cornerbound(results, it=None, idx=None, prior_transform=None, periodic=None, ndraws=5000, color='gray', plot_kwargs=None, labels=None, label_kwargs=None, max_n_ticks=5, use_math_text=False, show_live=False, live_color='darkviolet', live_kwargs=None, sp...

[ "def", "cornerbound", "(", "results", ",", "it", "=", "None", ",", "idx", "=", "None", ",", "prior_transform", "=", "None", ",", "periodic", "=", "None", ",", "ndraws", "=", "5000", ",", "color", "=", "'gray'", ",", "plot_kwargs", "=", "None", ",", "...

40.457726

20.189504