kejian/codesearchnet-python-pep8-full · Datasets at Hugging Face

text stringlengths 75 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 0.18
def transition(value, maximum, start, end): """ Transition between two values. :param value: Current iteration. :param maximum: Maximum number of iterations. :param start: Start value. :param end: End value. :returns: Transitional value. """ return round(start + (end - start) * value / ...	[ "def", "transition", "(", "value", ",", "maximum", ",", "start", ",", "end", ")", ":", "return", "round", "(", "start", "+", "(", "end", "-", "start", ")", "*", "value", "/", "maximum", ",", "2", ")" ]	32.2	0.003021
def simxSetSphericalJointMatrix(clientID, jointHandle, matrix, operationMode): ''' Please have a look at the function description/documentation in the V-REP user manual ''' matrix = (ct.c_float12)(matrix) return c_SetSphericalJointMatrix(clientID, jointHandle, matrix, operationMode)	[ "def", "simxSetSphericalJointMatrix", "(", "clientID", ",", "jointHandle", ",", "matrix", ",", "operationMode", ")", ":", "matrix", "=", "(", "ct", ".", "c_float", "", "12", ")", "(", "", "matrix", ")", "return", "c_SetSphericalJointMatrix", "(", "clientID",...	50	0.009836
def readline(self, echo=None, prompt='', use_history=True): """Return a line of text, including the terminating LF If echo is true always echo, if echo is false never echo If echo is None follow the negotiated setting. prompt is the current prompt to write (and rewrite if needed...	[ "def", "readline", "(", "self", ",", "echo", "=", "None", ",", "prompt", "=", "''", ",", "use_history", "=", "True", ")", ":", "line", "=", "[", "]", "insptr", "=", "0", "ansi", "=", "0", "histptr", "=", "len", "(", "self", ".", "history", ")", ...	39.495575	0.00306
def yield_from_handle(self, tokens): """Process Python 3.3 yield from.""" internal_assert(len(tokens) == 1, "invalid yield from tokens", tokens) if self.target_info < (3, 3): return ( yield_from_var + " = " + tokens[0] + "\nfor " + yield_item_var + " i...	[ "def", "yield_from_handle", "(", "self", ",", "tokens", ")", ":", "internal_assert", "(", "len", "(", "tokens", ")", "==", "1", ",", "\"invalid yield from tokens\"", ",", "tokens", ")", "if", "self", ".", "target_info", "<", "(", "3", ",", "3", ")", ":",...	44.454545	0.004008
def parse_html_urls(file_name, html_data): ''' Returns a list of tuples in the form (url, file_name, line_number) ''' try: html = lxml.html.fromstring(html_data) anchor_tags = html.cssselect('a') for a in anchor_tags: # A link was started but not finished, href with ...	[ "def", "parse_html_urls", "(", "file_name", ",", "html_data", ")", ":", "try", ":", "html", "=", "lxml", ".", "html", ".", "fromstring", "(", "html_data", ")", "anchor_tags", "=", "html", ".", "cssselect", "(", "'a'", ")", "for", "a", "in", "anchor_tags"...	30.565217	0.002759
def is_valid_channel(self, channel, conda_url='https://conda.anaconda.org', non_blocking=True): """Check if a conda channel is valid.""" logger.debug(str((channel, conda_url))) if non_blocking: method = self._...	[ "def", "is_valid_channel", "(", "self", ",", "channel", ",", "conda_url", "=", "'https://conda.anaconda.org'", ",", "non_blocking", "=", "True", ")", ":", "logger", ".", "debug", "(", "str", "(", "(", "channel", ",", "conda_url", ")", ")", ")", "if", "non_...	43.545455	0.010225
def authenticate(url, account, key, by='name', expires=0, timestamp=None, timeout=None, request_type="xml", admin_auth=False, use_password=False, raise_on_error=False): """ Authenticate to the Zimbra server :param url: URL of Zimbra SOAP service :param account: The accoun...	[ "def", "authenticate", "(", "url", ",", "account", ",", "key", ",", "by", "=", "'name'", ",", "expires", "=", "0", ",", "timestamp", "=", "None", ",", "timeout", "=", "None", ",", "request_type", "=", "\"xml\"", ",", "admin_auth", "=", "False", ",", ...	26.028571	0.000352
def is_complete(self): """ Checks whether all descriptor fields are set. If descriptor has at least one "*" or null field it is considered "incomplete" :return: true if all descriptor fields are defined and false otherwise. """ return self._group != None and self._type !...	[ "def", "is_complete", "(", "self", ")", ":", "return", "self", ".", "_group", "!=", "None", "and", "self", ".", "_type", "!=", "None", "and", "self", ".", "_kind", "!=", "None", "and", "self", ".", "_name", "!=", "None", "and", "self", ".", "_version...	44.888889	0.021845
def subsequent_calling_points(self): """ A list of CallingPoint objects. This is the list of all subsequent calling points for the service, including all associated services if the service splits into multiple services. """ calling_points = list() for cpl...	[ "def", "subsequent_calling_points", "(", "self", ")", ":", "calling_points", "=", "list", "(", ")", "for", "cpl", "in", "self", ".", "_subsequent_calling_point_lists", ":", "calling_points", "+=", "cpl", ".", "calling_points", "return", "calling_points" ]	35.75	0.004545
def prioritized_iter(cls, flag_val, env_val, config_val, config_default_val, hardcoded_val, default): """Yield the non-None values from highest-ranked to lowest, wrapped in RankedValue instances.""" if flag_val is not None: yield RankedValue(cls.FLAG, flag_val) if env_val is not...	[ "def", "prioritized_iter", "(", "cls", ",", "flag_val", ",", "env_val", ",", "config_val", ",", "config_default_val", ",", "hardcoded_val", ",", "default", ")", ":", "if", "flag_val", "is", "not", "None", ":", "yield", "RankedValue", "(", "cls", ".", "FLAG",...	48.142857	0.011645
def do_execute_direct(self, code: str, silent: bool = False) -> [str, dict]: """ This is the main method that takes code from the Jupyter cell and submits it to the SAS server :param code: code from the cell :param silent: :return: str with either the log or list """ ...	[ "def", "do_execute_direct", "(", "self", ",", "code", ":", "str", ",", "silent", ":", "bool", "=", "False", ")", "->", "[", "str", ",", "dict", "]", ":", "if", "not", "code", ".", "strip", "(", ")", ":", "return", "{", "'status'", ":", "'ok'", ",...	43.734694	0.004564
def cutout(im, n_holes, length): """ Cut out n_holes number of square holes of size length in image at random locations. Holes may overlap. """ r,c,*_ = im.shape mask = np.ones((r, c), np.int32) for n in range(n_holes): y = np.random.randint(0, r) x = np.random.randint(0, c) y1 ...	[ "def", "cutout", "(", "im", ",", "n_holes", ",", "length", ")", ":", "r", ",", "c", ",", "", "*", "_", "=", "im", ".", "shape", "mask", "=", "np", ".", "ones", "(", "(", "r", ",", "c", ")", ",", "np", ".", "int32", ")", "for", "n", "in", ...	34.235294	0.011706
def dump_counts(self, out=sys.stdout, count_fn=len, colwidth=10): """Dump out the summary counts of entries in this pivot table as a tabular listing. @param out: output stream to write to @param count_fn: (default=len) function for computing value for each pivot cell @param colw...	[ "def", "dump_counts", "(", "self", ",", "out", "=", "sys", ".", "stdout", ",", "count_fn", "=", "len", ",", "colwidth", "=", "10", ")", ":", "if", "len", "(", "self", ".", "_pivot_attrs", ")", "==", "1", ":", "out", ".", "write", "(", "\"Pivot: %s\...	56.146341	0.003843
def add_child_gradebook(self, gradebook_id, child_id): """Adds a child to a gradebook. arg: gradebook_id (osid.id.Id): the ``Id`` of a gradebook arg: child_id (osid.id.Id): the ``Id`` of the new child raise: AlreadyExists - ``gradebook_id`` is already a parent of ...	[ "def", "add_child_gradebook", "(", "self", ",", "gradebook_id", ",", "child_id", ")", ":", "# Implemented from template for", "# osid.resource.BinHierarchyDesignSession.add_child_bin_template", "if", "self", ".", "_catalog_session", "is", "not", "None", ":", "return", "self...	51.1	0.003842
def union(self, other): """Returns a new IntervalSet which represents the union of each of the intervals in this IntervalSet with each of the intervals in the other IntervalSet :param other: An IntervalSet to union with this one. """ result = IntervalSet() for el in self:...	[ "def", "union", "(", "self", ",", "other", ")", ":", "result", "=", "IntervalSet", "(", ")", "for", "el", "in", "self", ":", "result", ".", "add", "(", "el", ")", "for", "el", "in", "other", ":", "result", ".", "add", "(", "el", ")", "return", ...	37.363636	0.007126
def add_network_to_dhcp_agent(self, dhcp_agent, body=None): """Adds a network to dhcp agent.""" return self.post((self.agent_path + self.DHCP_NETS) % dhcp_agent, body=body)	[ "def", "add_network_to_dhcp_agent", "(", "self", ",", "dhcp_agent", ",", "body", "=", "None", ")", ":", "return", "self", ".", "post", "(", "(", "self", ".", "agent_path", "+", "self", ".", "DHCP_NETS", ")", "%", "dhcp_agent", ",", "body", "=", "body", ...	52.5	0.00939
def set_connection_logging(self, loadbalancer, val): """ Sets the connection logging for the given load balancer. """ uri = "/loadbalancers/%s/connectionlogging" % utils.get_id(loadbalancer) val = str(val).lower() req_body = {"connectionLogging": { "enable...	[ "def", "set_connection_logging", "(", "self", ",", "loadbalancer", ",", "val", ")", ":", "uri", "=", "\"/loadbalancers/%s/connectionlogging\"", "%", "utils", ".", "get_id", "(", "loadbalancer", ")", "val", "=", "str", "(", "val", ")", ".", "lower", "(", ")",...	38	0.007009
def triads_inv(reference_labels, estimated_labels): """Score chords along triad (root, quality to #5, & bass) relationships. Examples -------- >>> (ref_intervals, ... ref_labels) = mir_eval.io.load_labeled_intervals('ref.lab') >>> (est_intervals, ... est_labels) = mir_eval.io.load_labeled...	[ "def", "triads_inv", "(", "reference_labels", ",", "estimated_labels", ")", ":", "validate", "(", "reference_labels", ",", "estimated_labels", ")", "ref_roots", ",", "ref_semitones", ",", "ref_bass", "=", "encode_many", "(", "reference_labels", ",", "False", ")", ...	38.276596	0.000542
def add_decrypt_chunk( self, final_path, internal_fdstart, offsets, symkey, iv, hmac_datafile): # type: (CryptoOffload, str, int, blobxfer.models.download.Offsets, # bytes, bytes, str) -> None """Add a chunk to decrypt :param CryptoOffload self: this ...	[ "def", "add_decrypt_chunk", "(", "self", ",", "final_path", ",", "internal_fdstart", ",", "offsets", ",", "symkey", ",", "iv", ",", "hmac_datafile", ")", ":", "# type: (CryptoOffload, str, int, blobxfer.models.download.Offsets,", "# bytes, bytes, str) -> None", "self",...	43.055556	0.005051
def make_figure_source_geom(extractors, what): """ Extract the geometry of a given sources Example: http://127.0.0.1:8800/v1/calc/30/extract/source_geom/1,2,3 """ import matplotlib.pyplot as plt fig = plt.figure() [ex] = extractors sitecol = ex.get('sitecol') geom_by_src = vars(e...	[ "def", "make_figure_source_geom", "(", "extractors", ",", "what", ")", ":", "import", "matplotlib", ".", "pyplot", "as", "plt", "fig", "=", "plt", ".", "figure", "(", ")", "[", "ex", "]", "=", "extractors", "sitecol", "=", "ex", ".", "get", "(", "'site...	30.333333	0.001522
def right(self, f, n=1): """return the nearest n features strictly to the right of a Feature f. Overlapping features are not considered as to the right. f: a Feature object n: the number of features to return """ intervals = self.intervals[f.chrom] ilen = len(int...	[ "def", "right", "(", "self", ",", "f", ",", "n", "=", "1", ")", ":", "intervals", "=", "self", ".", "intervals", "[", "f", ".", "chrom", "]", "ilen", "=", "len", "(", "intervals", ")", "iright", "=", "binsearch_right_end", "(", "intervals", ",", "f...	34.636364	0.003831
def _find_append_zero_crossings(x, y): r""" Find and interpolate zero crossings. Estimate the zero crossings of an x,y series and add estimated crossings to series, returning a sorted array with no duplicate values. Parameters ---------- x : `pint.Quantity` x values of data y :...	[ "def", "_find_append_zero_crossings", "(", "x", ",", "y", ")", ":", "# Find and append crossings to the data", "crossings", "=", "find_intersections", "(", "x", "[", "1", ":", "]", ",", "y", "[", "1", ":", "]", ",", "np", ".", "zeros_like", "(", "y", "[", ...	24.945946	0.003128
def update(self): """Update \|KInz\| based on \|HInz\| and \|LAI\|. >>> from hydpy.models.lland import * >>> parameterstep('1d') >>> nhru(2) >>> hinz(0.2) >>> lai.acker_jun = 1.0 >>> lai.vers_dec = 2.0 >>> derived.kinz.update() >>> from hydpy import rou...	[ "def", "update", "(", "self", ")", ":", "con", "=", "self", ".", "subpars", ".", "pars", ".", "control", "self", "(", "con", ".", "hinz", "*", "con", ".", "lai", ")" ]	27.666667	0.003883
def main(): """ Entry point """ client_1 = MessageBot("verne", "Jules Verne") client_1.start() client_1.connect("127.0.0.1") client_2 = MessageBot("adams", "Douglas Adams") client_2.start() client_2.connect("127.0.0.1") herald_1 = Herald(client_1) herald_1.start() hera...	[ "def", "main", "(", ")", ":", "client_1", "=", "MessageBot", "(", "\"verne\"", ",", "\"Jules Verne\"", ")", "client_1", ".", "start", "(", ")", "client_1", ".", "connect", "(", "\"127.0.0.1\"", ")", "client_2", "=", "MessageBot", "(", "\"adams\"", ",", "\"...	21.322581	0.001447
def get_patient_pharmacies(self, patient_id, patients_favorite_only='N'): """ invokes TouchWorksMagicConstants.ACTION_GET_ENCOUNTER_LIST_FOR_PATIENT action :return: JSON response """ magic = self._magic_json( action=TouchWorksMagicConsta...	[ "def", "get_patient_pharmacies", "(", "self", ",", "patient_id", ",", "patients_favorite_only", "=", "'N'", ")", ":", "magic", "=", "self", ".", "_magic_json", "(", "action", "=", "TouchWorksMagicConstants", ".", "ACTION_GET_PATIENT_PHARAMCIES", ",", "patient_id", "...	43.5	0.007032
def format_runlog(runlog: List[Mapping[str, Any]]) -> str: """ Format a run log (return value of :py:meth:`simulate``) into a human-readable string :param runlog: The output of a call to :py:func:`simulate` """ to_ret = [] for command in runlog: to_ret.append( '\t' * com...	[ "def", "format_runlog", "(", "runlog", ":", "List", "[", "Mapping", "[", "str", ",", "Any", "]", "]", ")", "->", "str", ":", "to_ret", "=", "[", "]", "for", "command", "in", "runlog", ":", "to_ret", ".", "append", "(", "'\\t'", "*", "command", "[",...	37.315789	0.002751
def to_JSON(self): """Dumps object fields into a JSON formatted string :returns: the JSON string """ return json.dumps({"reference_time": self._reference_time, "location": json.loads(self._location.to_JSON()), "interval": self._int...	[ "def", "to_JSON", "(", "self", ")", ":", "return", "json", ".", "dumps", "(", "{", "\"reference_time\"", ":", "self", ".", "_reference_time", ",", "\"location\"", ":", "json", ".", "loads", "(", "self", ".", "_location", ".", "to_JSON", "(", ")", ")", ...	39.25	0.004149
def tiny_integer(self, column, auto_increment=False, unsigned=False): """ Create a new tiny integer column on the table. :param column: The column :type column: str :type auto_increment: bool :type unsigned: bool :rtype: Fluent """ return self....	[ "def", "tiny_integer", "(", "self", ",", "column", ",", "auto_increment", "=", "False", ",", "unsigned", "=", "False", ")", ":", "return", "self", ".", "_add_column", "(", "'tiny_integer'", ",", "column", ",", "auto_increment", "=", "auto_increment", ",", "u...	28.375	0.004264
def _init_context(self, gene_seq): """Initializes attributes defining mutation contexts and their position. The self.context2pos and self.pos2context dictionaries map from sequence context to sequence position and sequence position to sequence context, respectively. These attributes all...	[ "def", "_init_context", "(", "self", ",", "gene_seq", ")", ":", "self", ".", "context2pos", ",", "self", ".", "pos2context", "=", "{", "}", ",", "{", "}", "gene_len", "=", "len", "(", "gene_seq", ".", "exon_seq", ")", "# get length of CDS", "five_ss_len", ...	52.426471	0.001927
def get_groups_to_remove(self, current_roles, roles_to_remove): """get groups to remove from list of roles to remove and current roles """ current_roles = set(current_roles) ret = {} roles_to_remove = set(roles_to_remove) tmp = set([]) # get sub roles of ...	[ "def", "get_groups_to_remove", "(", "self", ",", "current_roles", ",", "roles_to_remove", ")", ":", "current_roles", "=", "set", "(", "current_roles", ")", "ret", "=", "{", "}", "roles_to_remove", "=", "set", "(", "roles_to_remove", ")", "tmp", "=", "set", "...	41.62963	0.001739
def port_add(self, dpid, port, mac): """ :returns: old port if learned. (this may be = port) None otherwise """ old_port = self.mac_to_port[dpid].get(mac, None) self.mac_to_port[dpid][mac] = port if old_port is not None and old_port != port: ...	[ "def", "port_add", "(", "self", ",", "dpid", ",", "port", ",", "mac", ")", ":", "old_port", "=", "self", ".", "mac_to_port", "[", "dpid", "]", ".", "get", "(", "mac", ",", "None", ")", "self", ".", "mac_to_port", "[", "dpid", "]", "[", "mac", "]"...	32.846154	0.004556
def macf_period_find( times, mags, errs, fillgaps=0.0, filterwindow=11, forcetimebin=None, maxlags=None, maxacfpeaks=10, smoothacf=21, # set for Kepler-type LCs, see details below smoothfunc=_smooth_acf_savgol, smoothfunckwargs=Non...	[ "def", "macf_period_find", "(", "times", ",", "mags", ",", "errs", ",", "fillgaps", "=", "0.0", ",", "filterwindow", "=", "11", ",", "forcetimebin", "=", "None", ",", "maxlags", "=", "None", ",", "maxacfpeaks", "=", "10", ",", "smoothacf", "=", "21", "...	39.217742	0.004011
def find_equals_true_or_false(node): """Finds equals true or false""" return ( isinstance(node, ast.Compare) and len(node.ops) == 1 and isinstance(node.ops[0], ast.Eq) and any(h.is_boolean(n) for n in node.comparators) )	[ "def", "find_equals_true_or_false", "(", "node", ")", ":", "return", "(", "isinstance", "(", "node", ",", "ast", ".", "Compare", ")", "and", "len", "(", "node", ".", "ops", ")", "==", "1", "and", "isinstance", "(", "node", ".", "ops", "[", "0", "]", ...	32.125	0.003788
def add_row(self, data: list): """ Add a row of buttons each with their own callbacks to the current widget. Each element in `data` will consist of a label and a command. :param data: a list of tuples of the form ('label', <callback>) :return: None """ #...	[ "def", "add_row", "(", "self", ",", "data", ":", "list", ")", ":", "# validation", "if", "self", ".", "headers", "and", "data", ":", "if", "len", "(", "self", ".", "headers", ")", "!=", "len", "(", "data", ")", ":", "raise", "ValueError", "offset", ...	34.0625	0.001784
def resource(args, loop=None, kwargs): """ Create a resource service client by name using the default session. See :py:meth:`aioboto3.session.Session.resource`. """ return _get_default_session(loop=loop).resource(args, **kwargs)	[ "def", "resource", "(", "", "args", ",", "loop", "=", "None", ",", "", "", "kwargs", ")", ":", "return", "_get_default_session", "(", "loop", "=", "loop", ")", ".", "resource", "(", "", "args", ",", "", "", "kwargs", ")" ]	41.166667	0.003968
def get_lldp_tlv(self, port_name, is_ncb=True, is_nb=False): """Function to Query LLDP TLV on the interface. """ reply = None if is_ncb: reply = self.run_lldptool(["get-tlv", "-n", "-i", port_name, "-g", "ncb"]) elif is_nb: r...	[ "def", "get_lldp_tlv", "(", "self", ",", "port_name", ",", "is_ncb", "=", "True", ",", "is_nb", "=", "False", ")", ":", "reply", "=", "None", "if", "is_ncb", ":", "reply", "=", "self", ".", "run_lldptool", "(", "[", "\"get-tlv\"", ",", "\"-n\"", ",", ...	42.384615	0.003552
def _overlapOK(self, i, j, overlap=None): """ Return True if the given overlap between bucket indices i and j are acceptable. If overlap is not specified, calculate it from the bucketMap """ if overlap is None: overlap = self._countOverlapIndices(i, j) if abs(i-j) < self.w: if overla...	[ "def", "_overlapOK", "(", "self", ",", "i", ",", "j", ",", "overlap", "=", "None", ")", ":", "if", "overlap", "is", "None", ":", "overlap", "=", "self", ".", "_countOverlapIndices", "(", "i", ",", "j", ")", "if", "abs", "(", "i", "-", "j", ")", ...	28.411765	0.012024
def _attributeStrs(self): """ Return name=value, semi-colon-separated string for attributes, including url-style quoting """ return ";".join([self._attributeStr(name) for name in self.attributes.iterkeys()])	[ "def", "_attributeStrs", "(", "self", ")", ":", "return", "\";\"", ".", "join", "(", "[", "self", ".", "_attributeStr", "(", "name", ")", "for", "name", "in", "self", ".", "attributes", ".", "iterkeys", "(", ")", "]", ")" ]	38	0.007353
def _normalize_metadata(metadata): """Normalize metadata to improve match accuracy.""" metadata = str(metadata) metadata = metadata.lower() metadata = re.sub(r'\/\s*\d+', '', metadata) # Remove "/<totaltracks>" from track number. metadata = re.sub(r'^0+([0-9]+)', r'\1', metadata) # Remove leading zero(s) from ...	[ "def", "_normalize_metadata", "(", "metadata", ")", ":", "metadata", "=", "str", "(", "metadata", ")", "metadata", "=", "metadata", ".", "lower", "(", ")", "metadata", "=", "re", ".", "sub", "(", "r'\\/\\s*\\d+'", ",", "''", ",", "metadata", ")", "# Remo...	48.9375	0.02005
def _intern( m: lmap.Map, sym: sym.Symbol, new_var: Var, force: bool = False ) -> lmap.Map: """Swap function used by intern to atomically intern a new variable in the symbol mapping for this Namespace.""" var = m.entry(sym, None) if var is None or force: return m....	[ "def", "_intern", "(", "m", ":", "lmap", ".", "Map", ",", "sym", ":", "sym", ".", "Symbol", ",", "new_var", ":", "Var", ",", "force", ":", "bool", "=", "False", ")", "->", "lmap", ".", "Map", ":", "var", "=", "m", ".", "entry", "(", "sym", ",...	38.666667	0.008427
def get_qubits(self, indices=True): """ Returns all of the qubit indices used in this program, including gate applications and allocated qubits. e.g. >>> p = Program() >>> p.inst(("H", 1)) >>> p.get_qubits() {1} >>> q = p.alloc() ...	[ "def", "get_qubits", "(", "self", ",", "indices", "=", "True", ")", ":", "qubits", "=", "set", "(", ")", "for", "instr", "in", "self", ".", "instructions", ":", "if", "isinstance", "(", "instr", ",", "(", "Gate", ",", "Measurement", ")", ")", ":", ...	32.875	0.003695
def deprovision(self, instance_id: str, details: DeprovisionDetails, async_allowed: bool) -> DeprovisionServiceSpec: """ Further readings `CF Broker API#Deprovisioning <https://docs.cloudfoundry.org/services/api.html#deprovisioning>`_ :param instance_id: Instance id provided...	[ "def", "deprovision", "(", "self", ",", "instance_id", ":", "str", ",", "details", ":", "DeprovisionDetails", ",", "async_allowed", ":", "bool", ")", "->", "DeprovisionServiceSpec", ":", "raise", "NotImplementedError", "(", ")" ]	51.692308	0.005848
def _is_valid_templates_dict(policy_templates_dict, schema=None): """ Is this a valid policy template dictionary :param dict policy_templates_dict: Data to be validated :param dict schema: Optional, dictionary containing JSON Schema representing policy template :return: True, if...	[ "def", "_is_valid_templates_dict", "(", "policy_templates_dict", ",", "schema", "=", "None", ")", ":", "if", "not", "schema", ":", "schema", "=", "PolicyTemplatesProcessor", ".", "_read_schema", "(", ")", "try", ":", "jsonschema", ".", "validate", "(", "policy_t...	37.4	0.005215
def json(self, data): """Set the POST/PUT body content in JSON format for this request.""" if data is not None: self._body = json.dumps(data) self.add_header('Content-Type', 'application/json')	[ "def", "json", "(", "self", ",", "data", ")", ":", "if", "data", "is", "not", "None", ":", "self", ".", "_body", "=", "json", ".", "dumps", "(", "data", ")", "self", ".", "add_header", "(", "'Content-Type'", ",", "'application/json'", ")" ]	45.8	0.008584
def get_policies_from_aws(client, scope='Local'): """Returns a list of all the policies currently applied to an AWS Account. Returns a list containing all the policies for the specified scope Args: client (:obj:`boto3.session.Session`): A boto3 Session object scope (`str...	[ "def", "get_policies_from_aws", "(", "client", ",", "scope", "=", "'Local'", ")", ":", "done", "=", "False", "marker", "=", "None", "policies", "=", "[", "]", "while", "not", "done", ":", "if", "marker", ":", "response", "=", "client", ".", "list_policie...	29.965517	0.003344
def getStreamNetworkAsGeoJson(self, session, withNodes=True): """ Retrieve the stream network geometry in GeoJSON format. Args: session (:mod:`sqlalchemy.orm.session.Session`): SQLAlchemy session object bound to PostGIS enabled database withNodes (bool, optional): Includ...	[ "def", "getStreamNetworkAsGeoJson", "(", "self", ",", "session", ",", "withNodes", "=", "True", ")", ":", "features_list", "=", "[", "]", "# Assemble link features", "for", "link", "in", "self", ".", "streamLinks", ":", "link_geoJson", "=", "link", ".", "getAs...	38.263158	0.001341
def periodrec_worker(task): '''This is a parallel worker for running period-recovery. Parameters ---------- task : tuple This is used to pass args to the `periodicvar_recovery` function:: task[0] = period-finding result pickle to work on task[1] = simbasedir ...	[ "def", "periodrec_worker", "(", "task", ")", ":", "pfpkl", ",", "simbasedir", ",", "period_tolerance", "=", "task", "try", ":", "return", "periodicvar_recovery", "(", "pfpkl", ",", "simbasedir", ",", "period_tolerance", "=", "period_tolerance", ")", "except", "E...	25.84375	0.002331
def addif(self, iname): """ Add an interface to the bridge """ _runshell([brctlexe, 'addif', self.name, iname], "Could not add interface %s to %s." % (iname, self.name))	[ "def", "addif", "(", "self", ",", "iname", ")", ":", "_runshell", "(", "[", "brctlexe", ",", "'addif'", ",", "self", ".", "name", ",", "iname", "]", ",", "\"Could not add interface %s to %s.\"", "%", "(", "iname", ",", "self", ".", "name", ")", ")" ]	48.5	0.015228
def funnel(self, steps, timeframe=None, timezone=None, max_age=None, all_keys=False): """ Performs a Funnel query Returns an object containing the results for each step of the funnel. :param steps: array of dictionaries, one for each step. example: [{"event_collection":"signup","actor_...	[ "def", "funnel", "(", "self", ",", "steps", ",", "timeframe", "=", "None", ",", "timezone", "=", "None", ",", "max_age", "=", "None", ",", "all_keys", "=", "False", ")", ":", "params", "=", "self", ".", "get_params", "(", "steps", "=", "steps", ",", ...	44.64	0.004386
def message_create(self, originator, recipients, body, params=None): """Create a new message.""" if params is None: params = {} if type(recipients) == list: recipients = ','.join(recipients) params.update({'originator': originator, 'body': body, 'recipients': recipients}) ...	[ "def", "message_create", "(", "self", ",", "originator", ",", "recipients", ",", "body", ",", "params", "=", "None", ")", ":", "if", "params", "is", "None", ":", "params", "=", "{", "}", "if", "type", "(", "recipients", ")", "==", "list", ":", "recip...	47.75	0.010283
def run(items, background=None): """Detect copy number variations from batched set of samples using cn.mops. """ if not background: background = [] names = [tz.get_in(["rgnames", "sample"], x) for x in items + background] work_bams = [x["align_bam"] for x in items + background] if len(items + ba...	[ "def", "run", "(", "items", ",", "background", "=", "None", ")", ":", "if", "not", "background", ":", "background", "=", "[", "]", "names", "=", "[", "tz", ".", "get_in", "(", "[", "\"rgnames\"", ",", "\"sample\"", "]", ",", "x", ")", "for", "x", ...	51.444444	0.00424
def route(rule=None, blueprint=None, defaults=None, endpoint=None, is_member=False, methods=None, only_if=None, **rule_options): """ Decorator to set default route rules for a view function. The arguments this function accepts are very similar to Flask's :meth:`~flask.Flask.route`, however, th...	[ "def", "route", "(", "rule", "=", "None", ",", "blueprint", "=", "None", ",", "defaults", "=", "None", ",", "endpoint", "=", "None", ",", "is_member", "=", "False", ",", "methods", "=", "None", ",", "only_if", "=", "None", ",", "", "", "rule_option...	41.641509	0.002213
def window(self, vec): """Apply a window to the coefficients defined by vec. vec must have length nmax + 1. This is good way to filter the pattern by windowing in the coefficient domain. Example:: >>> vec = numpy.linspace(0, 1, c.nmax + 1) >>> c.w...	[ "def", "window", "(", "self", ",", "vec", ")", ":", "slce", "=", "slice", "(", "None", ",", "None", ",", "None", ")", "self", ".", "__setitem__", "(", "(", "slce", ",", "0", ")", ",", "self", ".", "__getitem__", "(", "(", "slce", ",", "0", ")",...	34.92	0.005574
def analyzeOverlaps(activeCoincsFile, encodingsFile, dataset): '''Mirror Image Visualization: Shows the encoding space juxtaposed against the coincidence space. The encoding space is the bottom-up sensory encoding and the coincidence space depicts the corresponding activation of coincidences in the SP. Hence, t...	[ "def", "analyzeOverlaps", "(", "activeCoincsFile", ",", "encodingsFile", ",", "dataset", ")", ":", "lines", "=", "activeCoincsFile", ".", "readlines", "(", ")", "inputs", "=", "encodingsFile", ".", "readlines", "(", ")", "w", "=", "len", "(", "inputs", "[", ...	36.454545	0.028528
def docCopyNode(self, doc, extended): """Do a copy of the node to a given document. """ if doc is None: doc__o = None else: doc__o = doc._o ret = libxml2mod.xmlDocCopyNode(self._o, doc__o, extended) if ret is None:raise treeError('xmlDocCopyNode() failed') __tmp = xmlNode...	[ "def", "docCopyNode", "(", "self", ",", "doc", ",", "extended", ")", ":", "if", "doc", "is", "None", ":", "doc__o", "=", "None", "else", ":", "doc__o", "=", "doc", ".", "_o", "ret", "=", "libxml2mod", ".", "xmlDocCopyNode", "(", "self", ".", "_o", ...	43	0.017094
def deserialize(self, value, kwargs): """Return a deserialized copy of the dict""" kwargs.update({'trusted': kwargs.get('trusted', False)}) if self.deserializer is not None: return self.deserializer(value, kwargs) if value is None: return None output_t...	[ "def", "deserialize", "(", "self", ",", "value", ",", "", "", "kwargs", ")", ":", "kwargs", ".", "update", "(", "{", "'trusted'", ":", "kwargs", ".", "get", "(", "'trusted'", ",", "False", ")", "}", ")", "if", "self", ".", "deserializer", "is", "...	41.1	0.002378
def format_ascii(sensor_graph): """Format this sensor graph as a loadable ascii file format. This includes commands to reset and clear previously stored sensor graphs. NB. This format does not include any required configuration variables that were specified in this sensor graph, so you should ...	[ "def", "format_ascii", "(", "sensor_graph", ")", ":", "cmdfile", "=", "CommandFile", "(", "\"Sensor Graph\"", ",", "\"1.0\"", ")", "# Clear any old sensor graph", "cmdfile", ".", "add", "(", "\"set_online\"", ",", "False", ")", "cmdfile", ".", "add", "(", "\"cle...	30.659574	0.002017
def hmsm_to_days(hour=0,min=0,sec=0,micro=0): """ Convert hours, minutes, seconds, and microseconds to fractional days. Parameters ---------- hour : int, optional Hour number. Defaults to 0. min : int, optional Minute number. Defaults to 0. sec : int, optional Seco...	[ "def", "hmsm_to_days", "(", "hour", "=", "0", ",", "min", "=", "0", ",", "sec", "=", "0", ",", "micro", "=", "0", ")", ":", "days", "=", "sec", "+", "(", "micro", "/", "1.e6", ")", "days", "=", "min", "+", "(", "days", "/", "60.", ")", "day...	17.75	0.005935
def _filter(msgdata, mailparser, mdfolder, mailfilters): """Filter msgdata by mailfilters""" if mailfilters: for f in mailfilters: msg = mailparser.parse(StringIO(msgdata)) rule = f(msg, folder=mdfolder) if rule: yield rule return	[ "def", "_filter", "(", "msgdata", ",", "mailparser", ",", "mdfolder", ",", "mailfilters", ")", ":", "if", "mailfilters", ":", "for", "f", "in", "mailfilters", ":", "msg", "=", "mailparser", ".", "parse", "(", "StringIO", "(", "msgdata", ")", ")", "rule",...	32.666667	0.003311
def delete_logstore(self, project_name, logstore_name): """ delete log store Unsuccessful opertaion will cause an LogException. :type project_name: string :param project_name: the Project name :type logstore_name: string :param logstore_name: the logstore name ...	[ "def", "delete_logstore", "(", "self", ",", "project_name", ",", "logstore_name", ")", ":", "headers", "=", "{", "}", "params", "=", "{", "}", "resource", "=", "\"/logstores/\"", "+", "logstore_name", "(", "resp", ",", "header", ")", "=", "self", ".", "_...	33.526316	0.007634
def list_is_type(ls, t): '''Assert that a list contains only elements of type t Return True if list contains elements of type t Raise TypeError if t is not a class Raise TypeError if ls is not a list Raise TypeError if ls contains non-t elements :param ls: LIST :param t: python class '...	[ "def", "list_is_type", "(", "ls", ",", "t", ")", ":", "if", "not", "isclass", "(", "t", ")", ":", "raise", "TypeError", "(", "\"{} is not a class\"", ".", "format", "(", "t", ")", ")", "elif", "not", "isinstance", "(", "ls", ",", "list", ")", ":", ...	33.15	0.001466
def _get_powercfg_minute_values(scheme, guid, subguid, safe_name): ''' Returns the AC/DC values in an dict for a guid and subguid for a the given scheme ''' if scheme is None: scheme = _get_current_scheme() if __grains__['osrelease'] == '7': cmd = 'powercfg /q {0} {1}'.format(sc...	[ "def", "_get_powercfg_minute_values", "(", "scheme", ",", "guid", ",", "subguid", ",", "safe_name", ")", ":", "if", "scheme", "is", "None", ":", "scheme", "=", "_get_current_scheme", "(", ")", "if", "__grains__", "[", "'osrelease'", "]", "==", "'7'", ":", ...	31.5	0.001185
def database_clone(targetcall, databasepath, complete=False): """ Checks to see if the database has already been downloaded. If not, runs the system call to download the database, and writes stdout and stderr to the logfile :param targetcall: system call to download, and possibly set-up ...	[ "def", "database_clone", "(", "targetcall", ",", "databasepath", ",", "complete", "=", "False", ")", ":", "# Create a file to store the logs; it will be used to determine if the database was downloaded and set-up", "completefile", "=", "os", ".", "path", ".", "join", "(", "...	61.277778	0.00625
def pip(filename): """Parse pip reqs file and transform it to setuptools requirements.""" requirements = [] for line in open(join(ROOT, 'requirements', filename)): line = line.strip() if not line or '://' in line: continue match = RE_REQUIREMENT.match(line) if mat...	[ "def", "pip", "(", "filename", ")", ":", "requirements", "=", "[", "]", "for", "line", "in", "open", "(", "join", "(", "ROOT", ",", "'requirements'", ",", "filename", ")", ")", ":", "line", "=", "line", ".", "strip", "(", ")", "if", "not", "line", ...	34.538462	0.002169
def fix(args): """ %prog fix ahrd.csv > ahrd.fixed.csv Fix ugly names from Uniprot. """ p = OptionParser(fix.__doc__) p.add_option("--ignore_sym_pat", default=False, action="store_true", help="Do not fix names matching symbol patterns i.e." + \ " names beginning or ending with g...	[ "def", "fix", "(", "args", ")", ":", "p", "=", "OptionParser", "(", "fix", ".", "__doc__", ")", "p", ".", "add_option", "(", "\"--ignore_sym_pat\"", ",", "default", "=", "False", ",", "action", "=", "\"store_true\"", ",", "help", "=", "\"Do not fix names m...	34.942857	0.008751
def computeDistortion(self, eEye, fU, fV): """ Gets the result of the distortion function for the specified eye and input UVs. UVs go from 0,0 in the upper left of that eye's viewport and 1,1 in the lower right of that eye's viewport. Returns true for success. Otherwise, returns false, ...	[ "def", "computeDistortion", "(", "self", ",", "eEye", ",", "fU", ",", "fV", ")", ":", "fn", "=", "self", ".", "function_table", ".", "computeDistortion", "pDistortionCoordinates", "=", "DistortionCoordinates_t", "(", ")", "result", "=", "fn", "(", "eEye", ",...	53.454545	0.010033
def output(self, filename): """ Output the inheritance relation _filename is not used Args: _filename(string) """ info = 'Inheritance\n' if not self.contracts: return info += blue('Child_Contract -> ') + green('Im...	[ "def", "output", "(", "self", ",", "filename", ")", ":", "info", "=", "'Inheritance\\n'", "if", "not", "self", ".", "contracts", ":", "return", "info", "+=", "blue", "(", "'Child_Contract -> '", ")", "+", "green", "(", "'Immediate_Base_Contracts'", ")", "inf...	42.138889	0.006443
def find_root(self): """Finds the index of the root node of the tree.""" self.find_parents() index = 0 while len(self.vertices[index].parents)>0: index = self.vertices[index].parents[0] return index	[ "def", "find_root", "(", "self", ")", ":", "self", ".", "find_parents", "(", ")", "index", "=", "0", "while", "len", "(", "self", ".", "vertices", "[", "index", "]", ".", "parents", ")", ">", "0", ":", "index", "=", "self", ".", "vertices", "[", ...	34.857143	0.012
def around_me_in(self, leaderboard_name, member, **options): ''' Retrieve a page of leaders from the named leaderboard around a given member. @param leaderboard_name [String] Name of the leaderboard. @param member [String] Member name. @param options [Hash] Options to be used wh...	[ "def", "around_me_in", "(", "self", ",", "leaderboard_name", ",", "member", ",", "", "", "options", ")", ":", "reverse_rank_for_member", "=", "None", "if", "self", ".", "order", "==", "self", ".", "DESC", ":", "reverse_rank_for_member", "=", "self", ".", ...	38.131579	0.003365
def export(self, version, export_dir): """ Create prov entities and activities. """ atts = [ (PROV['type'], self.type), (PROV['label'], self.label), ] if version['num'] == "1.0.0": atts += [ (NIDM_USER_SPECIFIED_THRESH...	[ "def", "export", "(", "self", ",", "version", ",", "export_dir", ")", ":", "atts", "=", "[", "(", "PROV", "[", "'type'", "]", ",", "self", ".", "type", ")", ",", "(", "PROV", "[", "'label'", "]", ",", "self", ".", "label", ")", ",", "]", "if", ...	31.333333	0.002064
def local_datetime(utcdatetime, format=None, timezone=None): """ Return local datetime based on the timezone It will automatically format the date. To not format the date, set format=False :param utcdatetime: Arrow or string :param format: string of format or False :param timezone: str...	[ "def", "local_datetime", "(", "utcdatetime", ",", "format", "=", "None", ",", "timezone", "=", "None", ")", ":", "if", "utcdatetime", "is", "None", ":", "return", "None", "timezone", "=", "timezone", "or", "config", "(", "\"DATETIME_TIMEZONE\"", ",", "\"US/E...	32.166667	0.003774
def level_order(tree, include_all=False): """ Returns an iterator over the tree in level-order If include_all is set to True, empty parts of the tree are filled with dummy entries and the iterator becomes infinite. """ q = deque() q.append(tree) while q: node = q.popleft() yiel...	[ "def", "level_order", "(", "tree", ",", "include_all", "=", "False", ")", ":", "q", "=", "deque", "(", ")", "q", ".", "append", "(", "tree", ")", "while", "q", ":", "node", "=", "q", ".", "popleft", "(", ")", "yield", "node", "if", "include_all", ...	28.941176	0.001969
def releaseCompleteNetToMs(Cause_presence=0, Facility_presence=0, UserUser_presence=0): """RELEASE COMPLETE Section 9.3.19.1""" a = TpPd(pd=0x3) b = MessageType(mesType=0x2a) # 00101010 packet = a / b if Cause_presence is 1: c = CauseHdr(ieiC=0x08, eightBitC=0x0) ...	[ "def", "releaseCompleteNetToMs", "(", "Cause_presence", "=", "0", ",", "Facility_presence", "=", "0", ",", "UserUser_presence", "=", "0", ")", ":", "a", "=", "TpPd", "(", "pd", "=", "0x3", ")", "b", "=", "MessageType", "(", "mesType", "=", "0x2a", ")", ...	35.625	0.001709
def get_logical_plan(cluster, environ, topology, role=None): ''' Get the logical plan state of a topology in a cluster :param cluster: :param environ: :param topology: :param role: :return: ''' params = dict(cluster=cluster, environ=environ, topology=topology) if role is not None: params['role']...	[ "def", "get_logical_plan", "(", "cluster", ",", "environ", ",", "topology", ",", "role", "=", "None", ")", ":", "params", "=", "dict", "(", "cluster", "=", "cluster", ",", "environ", "=", "environ", ",", "topology", "=", "topology", ")", "if", "role", ...	31.466667	0.012346
def render_to_texture(self, data, texture, offset, size): """Render a SDF to a texture at a given offset and size Parameters ---------- data : array Must be 2D with type np.ubyte. texture : instance of Texture2D The texture to render to. offset : ...	[ "def", "render_to_texture", "(", "self", ",", "data", ",", "texture", ",", "offset", ",", "size", ")", ":", "assert", "isinstance", "(", "texture", ",", "Texture2D", ")", "set_state", "(", "blend", "=", "False", ",", "depth_test", "=", "False", ")", "# c...	38.314286	0.002909
def linkify_h_by_hd(self, hosts): """Add dependency in host objects :param hosts: hosts list :type hosts: alignak.objects.host.Hosts :return: None """ for hostdep in self: # Only used for debugging purpose when loops are detected setattr(hostdep, ...	[ "def", "linkify_h_by_hd", "(", "self", ",", "hosts", ")", ":", "for", "hostdep", "in", "self", ":", "# Only used for debugging purpose when loops are detected", "setattr", "(", "hostdep", ",", "\"host_name_string\"", ",", "\"undefined\"", ")", "setattr", "(", "hostdep...	47.558824	0.003636
def open_streaming_interface(self): """Called when someone opens a streaming interface to the device. This method will automatically notify sensor_graph that there is a streaming interface opened. Returns: list: A list of IOTileReport objects that should be sent out ...	[ "def", "open_streaming_interface", "(", "self", ")", ":", "super", "(", "ReferenceDevice", ",", "self", ")", ".", "open_streaming_interface", "(", ")", "self", ".", "rpc", "(", "8", ",", "rpcs", ".", "SG_GRAPH_INPUT", ",", "8", ",", "streams", ".", "COMM_T...	33.533333	0.003868
def create_message(self): """Returns a message body to send in this email. Should be from email.mime.*""" body = dedent("""\ Received exception {exception} on {queue} from worker {worker}: {traceback} Payload: {payload} """).format(exception=self._exception, ...	[ "def", "create_message", "(", "self", ")", ":", "body", "=", "dedent", "(", "\"\"\"\\\n Received exception {exception} on {queue} from worker {worker}:\n\n {traceback}\n\n Payload:\n {payload}\n\n \"\"\"", ")", ".", "format", "(", "exception", "=", ...	27.666667	0.013592
def _from_specs(self, dims, spacing=(1.0,1.0,1.0), origin=(0.0, 0.0, 0.0)): """ Create VTK image data directly from numpy arrays. A uniform grid is defined by the node spacings for each axis (uniform along each individual axis) and the number of nodes on each axis. These are rela...	[ "def", "_from_specs", "(", "self", ",", "dims", ",", "spacing", "=", "(", "1.0", ",", "1.0", ",", "1.0", ")", ",", "origin", "=", "(", "0.0", ",", "0.0", ",", "0.0", ")", ")", ":", "xn", ",", "yn", ",", "zn", "=", "dims", "[", "0", "]", ","...	41.916667	0.005831
def policy_evaluation(pi, U, mdp, k=20): """Return an updated utility mapping U from each state in the MDP to its utility, using an approximation (modified policy iteration).""" R, T, gamma = mdp.R, mdp.T, mdp.gamma for i in range(k): for s in mdp.states: U[s] = R(s) + gamma * sum([p...	[ "def", "policy_evaluation", "(", "pi", ",", "U", ",", "mdp", ",", "k", "=", "20", ")", ":", "R", ",", "T", ",", "gamma", "=", "mdp", ".", "R", ",", "mdp", ".", "T", ",", "mdp", ".", "gamma", "for", "i", "in", "range", "(", "k", ")", ":", ...	45.375	0.002703
def encode(self, inputRow): """Encodes the given input row as a dict, with the keys being the field names. This also adds in some meta fields: '_category': The value from the category field (if any) '_reset': True if the reset field was True (if any) '_sequenceId': the value from the sequenceI...	[ "def", "encode", "(", "self", ",", "inputRow", ")", ":", "# Create the return dict", "result", "=", "dict", "(", "zip", "(", "self", ".", "_fieldNames", ",", "inputRow", ")", ")", "# Add in the special fields", "if", "self", ".", "_categoryFieldIndex", "is", "...	34.070423	0.008839
def tangent_bundle(self): """The tangent bundle associated with `domain` using `partition`. The tangent bundle of a space ``X`` of functions ``R^d --> F`` can be interpreted as the space of vector-valued functions ``R^d --> F^d``. This space can be identified with the power space ``X^d`...	[ "def", "tangent_bundle", "(", "self", ")", ":", "if", "self", ".", "ndim", "==", "0", ":", "return", "ProductSpace", "(", "field", "=", "self", ".", "field", ")", "else", ":", "return", "ProductSpace", "(", "self", ",", "self", ".", "ndim", ")" ]	41.833333	0.003899
def create(self, validated_data): """ This is a standard method called indirectly by calling 'save' on the serializer. This method expects the 'parent_field' and 'parent_instance' to be included in the Serializer context. """ if self.context.get('parent_field') \ ...	[ "def", "create", "(", "self", ",", "validated_data", ")", ":", "if", "self", ".", "context", ".", "get", "(", "'parent_field'", ")", "and", "self", ".", "context", ".", "get", "(", "'parent_instance'", ")", ":", "validated_data", ".", "update", "(", "{",...	38.8125	0.004717
def GetServiceDll(self, key): """Get the Service DLL for a service, if it exists. Checks for a ServiceDLL for in the Parameters subkey of a service key in the Registry. Args: key (dfwinreg.WinRegistryKey): a Windows Registry key. Returns: str: path of the service DLL or None. """ ...	[ "def", "GetServiceDll", "(", "self", ",", "key", ")", ":", "parameters_key", "=", "key", ".", "GetSubkeyByName", "(", "'Parameters'", ")", "if", "not", "parameters_key", ":", "return", "None", "service_dll", "=", "parameters_key", ".", "GetValueByName", "(", "...	26	0.0053
def auto_zip_open(filepath, mode): """Convenience function for opening potentially-compressed files.""" if filepath.endswith('.gz'): outfile = gzip.open(filepath, mode) elif filepath.endswith('.bz2'): outfile = bz2.BZ2File(filepath, mode) else: outfile = open(filepath, mode) ...	[ "def", "auto_zip_open", "(", "filepath", ",", "mode", ")", ":", "if", "filepath", ".", "endswith", "(", "'.gz'", ")", ":", "outfile", "=", "gzip", ".", "open", "(", "filepath", ",", "mode", ")", "elif", "filepath", ".", "endswith", "(", "'.bz2'", ")", ...	36.222222	0.002994
def change_note_duration(self, at, to): """Change the note duration at the given index to the given duration.""" if valid_beat_duration(to): diff = 0 for x in self.bar: if diff != 0: x[0][0] -= diff if x[0] == at: ...	[ "def", "change_note_duration", "(", "self", ",", "at", ",", "to", ")", ":", "if", "valid_beat_duration", "(", "to", ")", ":", "diff", "=", "0", "for", "x", "in", "self", ".", "bar", ":", "if", "diff", "!=", "0", ":", "x", "[", "0", "]", "[", "0...	34.416667	0.004717
def user_absent(name, htpasswd_file=None, runas=None): ''' Make sure the user is not in the specified htpasswd file name User name htpasswd_file Path to the htpasswd file runas The system user to run htpasswd command with ''' ret = {'name': name, 'chang...	[ "def", "user_absent", "(", "name", ",", "htpasswd_file", "=", "None", ",", "runas", "=", "None", ")", ":", "ret", "=", "{", "'name'", ":", "name", ",", "'changes'", ":", "{", "}", ",", "'comment'", ":", "''", ",", "'result'", ":", "None", "}", "exi...	26.5	0.001654
def parse_simple_duration(duration): """ Attepmt to parse an ISO8601 formatted duration, using a naive calculation. Accepts a ``duration`` which must be an ISO8601 formatted string, and assumes 365 days in a year and 30 days in a month for the calculation. Returns a ``datetime.timedelta`` object. ...	[ "def", "parse_simple_duration", "(", "duration", ")", ":", "elements", "=", "_parse_duration_string", "(", "_clean", "(", "duration", ")", ")", "if", "not", "elements", ":", "raise", "ParseError", "(", ")", "return", "_timedelta_from_elements", "(", "elements", ...	31	0.002088
def construct_rest_of_worlds_mapping(self, excluded, fp=None): """Construct topo mapping file for ``excluded``. ``excluded`` must be a dictionary of {"rest-of-world label": ["names", "of", "excluded", "locations"]}``. Topo mapping has the data format: .. code-block:: python ...	[ "def", "construct_rest_of_worlds_mapping", "(", "self", ",", "excluded", ",", "fp", "=", "None", ")", ":", "metadata", "=", "{", "'filename'", ":", "'faces.gpkg'", ",", "'field'", ":", "'id'", ",", "'sha256'", ":", "sha256", "(", "self", ".", "faces_fp", "...	34.95	0.003479
def has_aligned_reads(align_bam, region=None): """Check if the aligned BAM file has any reads in the region. region can be a chromosome string ("chr22"), a tuple region (("chr22", 1, 100)) or a file of regions. """ import pybedtools if region is not None: if isinstance(region, six.strin...	[ "def", "has_aligned_reads", "(", "align_bam", ",", "region", "=", "None", ")", ":", "import", "pybedtools", "if", "region", "is", "not", "None", ":", "if", "isinstance", "(", "region", ",", "six", ".", "string_types", ")", "and", "os", ".", "path", ".", ...	38.692308	0.00194
def map_volume_to_sdc(self, volumeObj, sdcObj=None, allowMultipleMappings=False, **kwargs): """ Map a Volume to SDC :param volumeObj: ScaleIO Volume object :param sdcObj: ScaleIO SDC object :param allowMultipleMappings: True to allow more than one SDC to be mapped to volume ...	[ "def", "map_volume_to_sdc", "(", "self", ",", "volumeObj", ",", "sdcObj", "=", "None", ",", "allowMultipleMappings", "=", "False", ",", "", "", "kwargs", ")", ":", "self", ".", "conn", ".", "connection", ".", "_check_login", "(", ")", "if", "kwargs", "...	51.421053	0.007035
def invoke(self, args, kwargs): """ Send the required soap message to invoke the specified method @param args: A list of args for the method invoked. @type args: list @param kwargs: Named (keyword) args for the method invoked. @type kwargs: dict @return: The resul...	[ "def", "invoke", "(", "self", ",", "args", ",", "kwargs", ")", ":", "simulation", "=", "kwargs", "[", "self", ".", "injkey", "]", "msg", "=", "simulation", ".", "get", "(", "'msg'", ")", "reply", "=", "simulation", ".", "get", "(", "'reply'", ")", ...	39.043478	0.002174
def saveTargetsToFile(self, filename): """ Deprecated. """ fp = open(filename, 'w') for target in self.targets: vec = self.replacePatterns(target) for item in vec: fp.write("%f " % item) fp.write("\n")	[ "def", "saveTargetsToFile", "(", "self", ",", "filename", ")", ":", "fp", "=", "open", "(", "filename", ",", "'w'", ")", "for", "target", "in", "self", ".", "targets", ":", "vec", "=", "self", ".", "replacePatterns", "(", "target", ")", "for", "item", ...	28.4	0.006826
def finder(self, figsize=(7,7), *kwargs): ''' Plot a finder chart. This does* create a new figure. ''' try: center = self.meta['center'] radius = self.meta['radius'] except KeyError: return self.allskyfinder(**kwargs) plt.figure(fig...	[ "def", "finder", "(", "self", ",", "figsize", "=", "(", "7", ",", "7", ")", ",", "", "", "kwargs", ")", ":", "try", ":", "center", "=", "self", ".", "meta", "[", "'center'", "]", "radius", "=", "self", ".", "meta", "[", "'radius'", "]", "exce...	35.318182	0.008772
def time_to_number(self, time): """ Converts a time instance to a corresponding float value. """ if not isinstance(time, datetime.time): raise TypeError(time) return ((time.second / 60.0 + time.minute) / 60.0 + time.hour) / 24.0	[ "def", "time_to_number", "(", "self", ",", "time", ")", ":", "if", "not", "isinstance", "(", "time", ",", "datetime", ".", "time", ")", ":", "raise", "TypeError", "(", "time", ")", "return", "(", "(", "time", ".", "second", "/", "60.0", "+", "time", ...	39.142857	0.007143
def TP2(dv, u, jac=False): '''Demo problem 2 for horsetail matching, takes two input vectors of size 2 and returns just the qoi if jac is False or the qoi and its gradient if jac is True''' y = dv[0]/2. z = dv[1]/2. + 12 q = 0.25((y2 + z2)/10 + 5u[0]u[1] - zu[1]*2) + 0.2zu[1]*3 + 7 ...	[ "def", "TP2", "(", "dv", ",", "u", ",", "jac", "=", "False", ")", ":", "y", "=", "dv", "[", "0", "]", "/", "2.", "z", "=", "dv", "[", "1", "]", "/", "2.", "+", "12", "q", "=", "0.25", "", "(", "(", "y", "", "2", "+", "z", "*", "...	31.8	0.008147
def _process_command(self, command, name=None): """Process ``make_ndx`` command and return name and temp index file.""" self._command_counter += 1 if name is None: name = "CMD{0:03d}".format(self._command_counter) # Need to build it with two make_ndx calls because I cannot...	[ "def", "_process_command", "(", "self", ",", "command", ",", "name", "=", "None", ")", ":", "self", ".", "_command_counter", "+=", "1", "if", "name", "is", "None", ":", "name", "=", "\"CMD{0:03d}\"", ".", "format", "(", "self", ".", "_command_counter", "...	49.2	0.009302
def issuer(self, value): """ An asn1crypto.x509.Certificate object of the issuer. Used to populate both the issuer field, but also the authority key identifier extension. """ is_oscrypto = isinstance(value, asymmetric.Certificate) if not isinstance(value, x509.Certificat...	[ "def", "issuer", "(", "self", ",", "value", ")", ":", "is_oscrypto", "=", "isinstance", "(", "value", ",", "asymmetric", ".", "Certificate", ")", "if", "not", "isinstance", "(", "value", ",", "x509", ".", "Certificate", ")", "and", "not", "is_oscrypto", ...	35.08	0.00222
def empy_hankel(ftype, zsrc, zrec, res, freqtime, depth=None, aniso=None, epermH=None, epermV=None, mpermH=None, mpermV=None, htarg=None, verblhs=0, verbrhs=0): r"""Numerical transform pair with empymod. All parameters except ``ftype``, ``verblhs``, and ``verbrhs`` correspond to...	[ "def", "empy_hankel", "(", "ftype", ",", "zsrc", ",", "zrec", ",", "res", ",", "freqtime", ",", "depth", "=", "None", ",", "aniso", "=", "None", ",", "epermH", "=", "None", ",", "epermV", "=", "None", ",", "mpermH", "=", "None", ",", "mpermV", "=",...	32	0.000361
def _handle_bugged_tarfile(self, destination, skip_top_level): """ Handle tar file that tarfile library mistakenly reports as invalid. Happens with tar files created on FAT systems. See: http://stackoverflow.com/questions/25552162/tarfile-readerror-file-could-not-be-opened-successfully ...	[ "def", "_handle_bugged_tarfile", "(", "self", ",", "destination", ",", "skip_top_level", ")", ":", "args", "=", "[", "'tar'", ",", "'-xzf'", ",", "self", ".", "destination", ",", "'-C'", ",", "destination", "]", "if", "skip_top_level", ":", "args", ".", "e...	50.6	0.003883

def transition(value, maximum, start, end): """ Transition between two values. :param value: Current iteration. :param maximum: Maximum number of iterations. :param start: Start value. :param end: End value. :returns: Transitional value. """ return round(start + (end - start) * value / ...

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32.2

0.003021

def simxSetSphericalJointMatrix(clientID, jointHandle, matrix, operationMode): ''' Please have a look at the function description/documentation in the V-REP user manual ''' matrix = (ct.c_float*12)(*matrix) return c_SetSphericalJointMatrix(clientID, jointHandle, matrix, operationMode)

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50

0.009836

def readline(self, echo=None, prompt='', use_history=True): """Return a line of text, including the terminating LF If echo is true always echo, if echo is false never echo If echo is None follow the negotiated setting. prompt is the current prompt to write (and rewrite if needed...

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39.495575

0.00306

def yield_from_handle(self, tokens): """Process Python 3.3 yield from.""" internal_assert(len(tokens) == 1, "invalid yield from tokens", tokens) if self.target_info < (3, 3): return ( yield_from_var + " = " + tokens[0] + "\nfor " + yield_item_var + " i...

[ "def", "yield_from_handle", "(", "self", ",", "tokens", ")", ":", "internal_assert", "(", "len", "(", "tokens", ")", "==", "1", ",", "\"invalid yield from tokens\"", ",", "tokens", ")", "if", "self", ".", "target_info", "<", "(", "3", ",", "3", ")", ":",...

44.454545

0.004008

def parse_html_urls(file_name, html_data): ''' Returns a list of tuples in the form (url, file_name, line_number) ''' try: html = lxml.html.fromstring(html_data) anchor_tags = html.cssselect('a') for a in anchor_tags: # A link was started but not finished, href with ...

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30.565217

0.002759

def is_valid_channel(self, channel, conda_url='https://conda.anaconda.org', non_blocking=True): """Check if a conda channel is valid.""" logger.debug(str((channel, conda_url))) if non_blocking: method = self._...

[ "def", "is_valid_channel", "(", "self", ",", "channel", ",", "conda_url", "=", "'https://conda.anaconda.org'", ",", "non_blocking", "=", "True", ")", ":", "logger", ".", "debug", "(", "str", "(", "(", "channel", ",", "conda_url", ")", ")", ")", "if", "non_...

43.545455

0.010225

def authenticate(url, account, key, by='name', expires=0, timestamp=None, timeout=None, request_type="xml", admin_auth=False, use_password=False, raise_on_error=False): """ Authenticate to the Zimbra server :param url: URL of Zimbra SOAP service :param account: The accoun...

[ "def", "authenticate", "(", "url", ",", "account", ",", "key", ",", "by", "=", "'name'", ",", "expires", "=", "0", ",", "timestamp", "=", "None", ",", "timeout", "=", "None", ",", "request_type", "=", "\"xml\"", ",", "admin_auth", "=", "False", ",", ...

26.028571

0.000352

def is_complete(self): """ Checks whether all descriptor fields are set. If descriptor has at least one "*" or null field it is considered "incomplete" :return: true if all descriptor fields are defined and false otherwise. """ return self._group != None and self._type !...

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44.888889

0.021845

def subsequent_calling_points(self): """ A list of CallingPoint objects. This is the list of all subsequent calling points for the service, including all associated services if the service splits into multiple services. """ calling_points = list() for cpl...

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35.75

0.004545

def prioritized_iter(cls, flag_val, env_val, config_val, config_default_val, hardcoded_val, default): """Yield the non-None values from highest-ranked to lowest, wrapped in RankedValue instances.""" if flag_val is not None: yield RankedValue(cls.FLAG, flag_val) if env_val is not...

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48.142857

0.011645

def do_execute_direct(self, code: str, silent: bool = False) -> [str, dict]: """ This is the main method that takes code from the Jupyter cell and submits it to the SAS server :param code: code from the cell :param silent: :return: str with either the log or list """ ...

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43.734694

0.004564

def cutout(im, n_holes, length): """ Cut out n_holes number of square holes of size length in image at random locations. Holes may overlap. """ r,c,*_ = im.shape mask = np.ones((r, c), np.int32) for n in range(n_holes): y = np.random.randint(0, r) x = np.random.randint(0, c) y1 ...

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34.235294

0.011706

def dump_counts(self, out=sys.stdout, count_fn=len, colwidth=10): """Dump out the summary counts of entries in this pivot table as a tabular listing. @param out: output stream to write to @param count_fn: (default=len) function for computing value for each pivot cell @param colw...

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56.146341

0.003843

def add_child_gradebook(self, gradebook_id, child_id): """Adds a child to a gradebook. arg: gradebook_id (osid.id.Id): the ``Id`` of a gradebook arg: child_id (osid.id.Id): the ``Id`` of the new child raise: AlreadyExists - ``gradebook_id`` is already a parent of ...

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51.1

0.003842

def union(self, other): """Returns a new IntervalSet which represents the union of each of the intervals in this IntervalSet with each of the intervals in the other IntervalSet :param other: An IntervalSet to union with this one. """ result = IntervalSet() for el in self:...

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37.363636

0.007126

def add_network_to_dhcp_agent(self, dhcp_agent, body=None): """Adds a network to dhcp agent.""" return self.post((self.agent_path + self.DHCP_NETS) % dhcp_agent, body=body)

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52.5

0.00939

def set_connection_logging(self, loadbalancer, val): """ Sets the connection logging for the given load balancer. """ uri = "/loadbalancers/%s/connectionlogging" % utils.get_id(loadbalancer) val = str(val).lower() req_body = {"connectionLogging": { "enable...

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38

0.007009

def triads_inv(reference_labels, estimated_labels): """Score chords along triad (root, quality to #5, & bass) relationships. Examples -------- >>> (ref_intervals, ... ref_labels) = mir_eval.io.load_labeled_intervals('ref.lab') >>> (est_intervals, ... est_labels) = mir_eval.io.load_labeled...

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38.276596

0.000542

def add_decrypt_chunk( self, final_path, internal_fdstart, offsets, symkey, iv, hmac_datafile): # type: (CryptoOffload, str, int, blobxfer.models.download.Offsets, # bytes, bytes, str) -> None """Add a chunk to decrypt :param CryptoOffload self: this ...

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43.055556

0.005051

def make_figure_source_geom(extractors, what): """ Extract the geometry of a given sources Example: http://127.0.0.1:8800/v1/calc/30/extract/source_geom/1,2,3 """ import matplotlib.pyplot as plt fig = plt.figure() [ex] = extractors sitecol = ex.get('sitecol') geom_by_src = vars(e...

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30.333333

0.001522

def right(self, f, n=1): """return the nearest n features strictly to the right of a Feature f. Overlapping features are not considered as to the right. f: a Feature object n: the number of features to return """ intervals = self.intervals[f.chrom] ilen = len(int...

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34.636364

0.003831

def _find_append_zero_crossings(x, y): r""" Find and interpolate zero crossings. Estimate the zero crossings of an x,y series and add estimated crossings to series, returning a sorted array with no duplicate values. Parameters ---------- x : `pint.Quantity` x values of data y :...

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24.945946

0.003128

[ "def", "update", "(", "self", ")", ":", "con", "=", "self", ".", "subpars", ".", "pars", ".", "control", "self", "(", "con", ".", "hinz", "*", "con", ".", "lai", ")" ]

27.666667

0.003883

def main(): """ Entry point """ client_1 = MessageBot("verne", "Jules Verne") client_1.start() client_1.connect("127.0.0.1") client_2 = MessageBot("adams", "Douglas Adams") client_2.start() client_2.connect("127.0.0.1") herald_1 = Herald(client_1) herald_1.start() hera...

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21.322581

0.001447

def get_patient_pharmacies(self, patient_id, patients_favorite_only='N'): """ invokes TouchWorksMagicConstants.ACTION_GET_ENCOUNTER_LIST_FOR_PATIENT action :return: JSON response """ magic = self._magic_json( action=TouchWorksMagicConsta...

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43.5

0.007032

def format_runlog(runlog: List[Mapping[str, Any]]) -> str: """ Format a run log (return value of :py:meth:`simulate``) into a human-readable string :param runlog: The output of a call to :py:func:`simulate` """ to_ret = [] for command in runlog: to_ret.append( '\t' * com...

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37.315789

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def to_JSON(self): """Dumps object fields into a JSON formatted string :returns: the JSON string """ return json.dumps({"reference_time": self._reference_time, "location": json.loads(self._location.to_JSON()), "interval": self._int...

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def tiny_integer(self, column, auto_increment=False, unsigned=False): """ Create a new tiny integer column on the table. :param column: The column :type column: str :type auto_increment: bool :type unsigned: bool :rtype: Fluent """ return self....

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def _init_context(self, gene_seq): """Initializes attributes defining mutation contexts and their position. The self.context2pos and self.pos2context dictionaries map from sequence context to sequence position and sequence position to sequence context, respectively. These attributes all...

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def get_groups_to_remove(self, current_roles, roles_to_remove): """get groups to remove from list of roles to remove and current roles """ current_roles = set(current_roles) ret = {} roles_to_remove = set(roles_to_remove) tmp = set([]) # get sub roles of ...

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def port_add(self, dpid, port, mac): """ :returns: old port if learned. (this may be = port) None otherwise """ old_port = self.mac_to_port[dpid].get(mac, None) self.mac_to_port[dpid][mac] = port if old_port is not None and old_port != port: ...

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def macf_period_find( times, mags, errs, fillgaps=0.0, filterwindow=11, forcetimebin=None, maxlags=None, maxacfpeaks=10, smoothacf=21, # set for Kepler-type LCs, see details below smoothfunc=_smooth_acf_savgol, smoothfunckwargs=Non...

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def find_equals_true_or_false(node): """Finds equals true or false""" return ( isinstance(node, ast.Compare) and len(node.ops) == 1 and isinstance(node.ops[0], ast.Eq) and any(h.is_boolean(n) for n in node.comparators) )

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def add_row(self, data: list): """ Add a row of buttons each with their own callbacks to the current widget. Each element in `data` will consist of a label and a command. :param data: a list of tuples of the form ('label', <callback>) :return: None """ #...

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def resource(*args, loop=None, **kwargs): """ Create a resource service client by name using the default session. See :py:meth:`aioboto3.session.Session.resource`. """ return _get_default_session(loop=loop).resource(*args, **kwargs)

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def get_lldp_tlv(self, port_name, is_ncb=True, is_nb=False): """Function to Query LLDP TLV on the interface. """ reply = None if is_ncb: reply = self.run_lldptool(["get-tlv", "-n", "-i", port_name, "-g", "ncb"]) elif is_nb: r...

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def _overlapOK(self, i, j, overlap=None): """ Return True if the given overlap between bucket indices i and j are acceptable. If overlap is not specified, calculate it from the bucketMap """ if overlap is None: overlap = self._countOverlapIndices(i, j) if abs(i-j) < self.w: if overla...

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def _attributeStrs(self): """ Return name=value, semi-colon-separated string for attributes, including url-style quoting """ return ";".join([self._attributeStr(name) for name in self.attributes.iterkeys()])

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def _normalize_metadata(metadata): """Normalize metadata to improve match accuracy.""" metadata = str(metadata) metadata = metadata.lower() metadata = re.sub(r'\/\s*\d+', '', metadata) # Remove "/<totaltracks>" from track number. metadata = re.sub(r'^0+([0-9]+)', r'\1', metadata) # Remove leading zero(s) from ...

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def _intern( m: lmap.Map, sym: sym.Symbol, new_var: Var, force: bool = False ) -> lmap.Map: """Swap function used by intern to atomically intern a new variable in the symbol mapping for this Namespace.""" var = m.entry(sym, None) if var is None or force: return m....

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def get_qubits(self, indices=True): """ Returns all of the qubit indices used in this program, including gate applications and allocated qubits. e.g. >>> p = Program() >>> p.inst(("H", 1)) >>> p.get_qubits() {1} >>> q = p.alloc() ...

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def deprovision(self, instance_id: str, details: DeprovisionDetails, async_allowed: bool) -> DeprovisionServiceSpec: """ Further readings `CF Broker API#Deprovisioning <https://docs.cloudfoundry.org/services/api.html#deprovisioning>`_ :param instance_id: Instance id provided...

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def _is_valid_templates_dict(policy_templates_dict, schema=None): """ Is this a valid policy template dictionary :param dict policy_templates_dict: Data to be validated :param dict schema: Optional, dictionary containing JSON Schema representing policy template :return: True, if...

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def json(self, data): """Set the POST/PUT body content in JSON format for this request.""" if data is not None: self._body = json.dumps(data) self.add_header('Content-Type', 'application/json')

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def get_policies_from_aws(client, scope='Local'): """Returns a list of all the policies currently applied to an AWS Account. Returns a list containing all the policies for the specified scope Args: client (:obj:`boto3.session.Session`): A boto3 Session object scope (`str...

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def getStreamNetworkAsGeoJson(self, session, withNodes=True): """ Retrieve the stream network geometry in GeoJSON format. Args: session (:mod:`sqlalchemy.orm.session.Session`): SQLAlchemy session object bound to PostGIS enabled database withNodes (bool, optional): Includ...

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def periodrec_worker(task): '''This is a parallel worker for running period-recovery. Parameters ---------- task : tuple This is used to pass args to the `periodicvar_recovery` function:: task[0] = period-finding result pickle to work on task[1] = simbasedir ...

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def addif(self, iname): """ Add an interface to the bridge """ _runshell([brctlexe, 'addif', self.name, iname], "Could not add interface %s to %s." % (iname, self.name))

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def funnel(self, steps, timeframe=None, timezone=None, max_age=None, all_keys=False): """ Performs a Funnel query Returns an object containing the results for each step of the funnel. :param steps: array of dictionaries, one for each step. example: [{"event_collection":"signup","actor_...

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def message_create(self, originator, recipients, body, params=None): """Create a new message.""" if params is None: params = {} if type(recipients) == list: recipients = ','.join(recipients) params.update({'originator': originator, 'body': body, 'recipients': recipients}) ...

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def run(items, background=None): """Detect copy number variations from batched set of samples using cn.mops. """ if not background: background = [] names = [tz.get_in(["rgnames", "sample"], x) for x in items + background] work_bams = [x["align_bam"] for x in items + background] if len(items + ba...

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def route(rule=None, blueprint=None, defaults=None, endpoint=None, is_member=False, methods=None, only_if=None, **rule_options): """ Decorator to set default route rules for a view function. The arguments this function accepts are very similar to Flask's :meth:`~flask.Flask.route`, however, th...

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def window(self, vec): """Apply a window to the coefficients defined by *vec*. *vec* must have length *nmax* + 1. This is good way to filter the pattern by windowing in the coefficient domain. Example:: >>> vec = numpy.linspace(0, 1, c.nmax + 1) >>> c.w...

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def analyzeOverlaps(activeCoincsFile, encodingsFile, dataset): '''Mirror Image Visualization: Shows the encoding space juxtaposed against the coincidence space. The encoding space is the bottom-up sensory encoding and the coincidence space depicts the corresponding activation of coincidences in the SP. Hence, t...

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def docCopyNode(self, doc, extended): """Do a copy of the node to a given document. """ if doc is None: doc__o = None else: doc__o = doc._o ret = libxml2mod.xmlDocCopyNode(self._o, doc__o, extended) if ret is None:raise treeError('xmlDocCopyNode() failed') __tmp = xmlNode...

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def deserialize(self, value, **kwargs): """Return a deserialized copy of the dict""" kwargs.update({'trusted': kwargs.get('trusted', False)}) if self.deserializer is not None: return self.deserializer(value, **kwargs) if value is None: return None output_t...

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def format_ascii(sensor_graph): """Format this sensor graph as a loadable ascii file format. This includes commands to reset and clear previously stored sensor graphs. NB. This format does not include any required configuration variables that were specified in this sensor graph, so you should ...

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def hmsm_to_days(hour=0,min=0,sec=0,micro=0): """ Convert hours, minutes, seconds, and microseconds to fractional days. Parameters ---------- hour : int, optional Hour number. Defaults to 0. min : int, optional Minute number. Defaults to 0. sec : int, optional Seco...

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def _filter(msgdata, mailparser, mdfolder, mailfilters): """Filter msgdata by mailfilters""" if mailfilters: for f in mailfilters: msg = mailparser.parse(StringIO(msgdata)) rule = f(msg, folder=mdfolder) if rule: yield rule return

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def delete_logstore(self, project_name, logstore_name): """ delete log store Unsuccessful opertaion will cause an LogException. :type project_name: string :param project_name: the Project name :type logstore_name: string :param logstore_name: the logstore name ...

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def list_is_type(ls, t): '''Assert that a list contains only elements of type t Return True if list contains elements of type t Raise TypeError if t is not a class Raise TypeError if ls is not a list Raise TypeError if ls contains non-t elements :param ls: LIST :param t: python class '...

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def _get_powercfg_minute_values(scheme, guid, subguid, safe_name): ''' Returns the AC/DC values in an dict for a guid and subguid for a the given scheme ''' if scheme is None: scheme = _get_current_scheme() if __grains__['osrelease'] == '7': cmd = 'powercfg /q {0} {1}'.format(sc...

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def database_clone(targetcall, databasepath, complete=False): """ Checks to see if the database has already been downloaded. If not, runs the system call to download the database, and writes stdout and stderr to the logfile :param targetcall: system call to download, and possibly set-up ...

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def pip(filename): """Parse pip reqs file and transform it to setuptools requirements.""" requirements = [] for line in open(join(ROOT, 'requirements', filename)): line = line.strip() if not line or '://' in line: continue match = RE_REQUIREMENT.match(line) if mat...

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def fix(args): """ %prog fix ahrd.csv > ahrd.fixed.csv Fix ugly names from Uniprot. """ p = OptionParser(fix.__doc__) p.add_option("--ignore_sym_pat", default=False, action="store_true", help="Do not fix names matching symbol patterns i.e." + \ " names beginning or ending with g...

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def computeDistortion(self, eEye, fU, fV): """ Gets the result of the distortion function for the specified eye and input UVs. UVs go from 0,0 in the upper left of that eye's viewport and 1,1 in the lower right of that eye's viewport. Returns true for success. Otherwise, returns false, ...

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def output(self, filename): """ Output the inheritance relation _filename is not used Args: _filename(string) """ info = 'Inheritance\n' if not self.contracts: return info += blue('Child_Contract -> ') + green('Im...

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def find_root(self): """Finds the index of the root node of the tree.""" self.find_parents() index = 0 while len(self.vertices[index].parents)>0: index = self.vertices[index].parents[0] return index

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def around_me_in(self, leaderboard_name, member, **options): ''' Retrieve a page of leaders from the named leaderboard around a given member. @param leaderboard_name [String] Name of the leaderboard. @param member [String] Member name. @param options [Hash] Options to be used wh...

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def export(self, version, export_dir): """ Create prov entities and activities. """ atts = [ (PROV['type'], self.type), (PROV['label'], self.label), ] if version['num'] == "1.0.0": atts += [ (NIDM_USER_SPECIFIED_THRESH...

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def local_datetime(utcdatetime, format=None, timezone=None): """ Return local datetime based on the timezone It will automatically format the date. To not format the date, set format=False :param utcdatetime: Arrow or string :param format: string of format or False :param timezone: str...

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def level_order(tree, include_all=False): """ Returns an iterator over the tree in level-order If include_all is set to True, empty parts of the tree are filled with dummy entries and the iterator becomes infinite. """ q = deque() q.append(tree) while q: node = q.popleft() yiel...

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def releaseCompleteNetToMs(Cause_presence=0, Facility_presence=0, UserUser_presence=0): """RELEASE COMPLETE Section 9.3.19.1""" a = TpPd(pd=0x3) b = MessageType(mesType=0x2a) # 00101010 packet = a / b if Cause_presence is 1: c = CauseHdr(ieiC=0x08, eightBitC=0x0) ...

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

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def render_to_texture(self, data, texture, offset, size): """Render a SDF to a texture at a given offset and size Parameters ---------- data : array Must be 2D with type np.ubyte. texture : instance of Texture2D The texture to render to. offset : ...

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def linkify_h_by_hd(self, hosts): """Add dependency in host objects :param hosts: hosts list :type hosts: alignak.objects.host.Hosts :return: None """ for hostdep in self: # Only used for debugging purpose when loops are detected setattr(hostdep, ...

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def open_streaming_interface(self): """Called when someone opens a streaming interface to the device. This method will automatically notify sensor_graph that there is a streaming interface opened. Returns: list: A list of IOTileReport objects that should be sent out ...

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def create_message(self): """Returns a message body to send in this email. Should be from email.mime.*""" body = dedent("""\ Received exception {exception} on {queue} from worker {worker}: {traceback} Payload: {payload} """).format(exception=self._exception, ...

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def _from_specs(self, dims, spacing=(1.0,1.0,1.0), origin=(0.0, 0.0, 0.0)): """ Create VTK image data directly from numpy arrays. A uniform grid is defined by the node spacings for each axis (uniform along each individual axis) and the number of nodes on each axis. These are rela...

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def policy_evaluation(pi, U, mdp, k=20): """Return an updated utility mapping U from each state in the MDP to its utility, using an approximation (modified policy iteration).""" R, T, gamma = mdp.R, mdp.T, mdp.gamma for i in range(k): for s in mdp.states: U[s] = R(s) + gamma * sum([p...

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def encode(self, inputRow): """Encodes the given input row as a dict, with the keys being the field names. This also adds in some meta fields: '_category': The value from the category field (if any) '_reset': True if the reset field was True (if any) '_sequenceId': the value from the sequenceI...

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def tangent_bundle(self): """The tangent bundle associated with `domain` using `partition`. The tangent bundle of a space ``X`` of functions ``R^d --> F`` can be interpreted as the space of vector-valued functions ``R^d --> F^d``. This space can be identified with the power space ``X^d`...

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def create(self, validated_data): """ This is a standard method called indirectly by calling 'save' on the serializer. This method expects the 'parent_field' and 'parent_instance' to be included in the Serializer context. """ if self.context.get('parent_field') \ ...

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def GetServiceDll(self, key): """Get the Service DLL for a service, if it exists. Checks for a ServiceDLL for in the Parameters subkey of a service key in the Registry. Args: key (dfwinreg.WinRegistryKey): a Windows Registry key. Returns: str: path of the service DLL or None. """ ...

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def auto_zip_open(filepath, mode): """Convenience function for opening potentially-compressed files.""" if filepath.endswith('.gz'): outfile = gzip.open(filepath, mode) elif filepath.endswith('.bz2'): outfile = bz2.BZ2File(filepath, mode) else: outfile = open(filepath, mode) ...

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def change_note_duration(self, at, to): """Change the note duration at the given index to the given duration.""" if valid_beat_duration(to): diff = 0 for x in self.bar: if diff != 0: x[0][0] -= diff if x[0] == at: ...

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def user_absent(name, htpasswd_file=None, runas=None): ''' Make sure the user is not in the specified htpasswd file name User name htpasswd_file Path to the htpasswd file runas The system user to run htpasswd command with ''' ret = {'name': name, 'chang...

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def parse_simple_duration(duration): """ Attepmt to parse an ISO8601 formatted duration, using a naive calculation. Accepts a ``duration`` which must be an ISO8601 formatted string, and assumes 365 days in a year and 30 days in a month for the calculation. Returns a ``datetime.timedelta`` object. ...

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def construct_rest_of_worlds_mapping(self, excluded, fp=None): """Construct topo mapping file for ``excluded``. ``excluded`` must be a **dictionary** of {"rest-of-world label": ["names", "of", "excluded", "locations"]}``. Topo mapping has the data format: .. code-block:: python ...

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def has_aligned_reads(align_bam, region=None): """Check if the aligned BAM file has any reads in the region. region can be a chromosome string ("chr22"), a tuple region (("chr22", 1, 100)) or a file of regions. """ import pybedtools if region is not None: if isinstance(region, six.strin...

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def map_volume_to_sdc(self, volumeObj, sdcObj=None, allowMultipleMappings=False, **kwargs): """ Map a Volume to SDC :param volumeObj: ScaleIO Volume object :param sdcObj: ScaleIO SDC object :param allowMultipleMappings: True to allow more than one SDC to be mapped to volume ...

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def invoke(self, args, kwargs): """ Send the required soap message to invoke the specified method @param args: A list of args for the method invoked. @type args: list @param kwargs: Named (keyword) args for the method invoked. @type kwargs: dict @return: The resul...

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def saveTargetsToFile(self, filename): """ Deprecated. """ fp = open(filename, 'w') for target in self.targets: vec = self.replacePatterns(target) for item in vec: fp.write("%f " % item) fp.write("\n")

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def finder(self, figsize=(7,7), **kwargs): ''' Plot a finder chart. This *does* create a new figure. ''' try: center = self.meta['center'] radius = self.meta['radius'] except KeyError: return self.allskyfinder(**kwargs) plt.figure(fig...

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def time_to_number(self, time): """ Converts a time instance to a corresponding float value. """ if not isinstance(time, datetime.time): raise TypeError(time) return ((time.second / 60.0 + time.minute) / 60.0 + time.hour) / 24.0

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def TP2(dv, u, jac=False): '''Demo problem 2 for horsetail matching, takes two input vectors of size 2 and returns just the qoi if jac is False or the qoi and its gradient if jac is True''' y = dv[0]/2. z = dv[1]/2. + 12 q = 0.25*((y**2 + z**2)/10 + 5*u[0]*u[1] - z*u[1]**2) + 0.2*z*u[1]**3 + 7 ...

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def _process_command(self, command, name=None): """Process ``make_ndx`` command and return name and temp index file.""" self._command_counter += 1 if name is None: name = "CMD{0:03d}".format(self._command_counter) # Need to build it with two make_ndx calls because I cannot...

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def issuer(self, value): """ An asn1crypto.x509.Certificate object of the issuer. Used to populate both the issuer field, but also the authority key identifier extension. """ is_oscrypto = isinstance(value, asymmetric.Certificate) if not isinstance(value, x509.Certificat...

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def empy_hankel(ftype, zsrc, zrec, res, freqtime, depth=None, aniso=None, epermH=None, epermV=None, mpermH=None, mpermV=None, htarg=None, verblhs=0, verbrhs=0): r"""Numerical transform pair with empymod. All parameters except ``ftype``, ``verblhs``, and ``verbrhs`` correspond to...

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32

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def _handle_bugged_tarfile(self, destination, skip_top_level): """ Handle tar file that tarfile library mistakenly reports as invalid. Happens with tar files created on FAT systems. See: http://stackoverflow.com/questions/25552162/tarfile-readerror-file-could-not-be-opened-successfully ...

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