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

text stringlengths 75 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 0.18
def _add_vector(self, hash_name, bucket_key, v, data, redis_object): ''' Store vector and JSON-serializable data in bucket with specified key. ''' redis_key = self._format_redis_key(hash_name, bucket_key) val_dict = {} # Depending on type (sparse or not) fill value dict...	[ "def", "_add_vector", "(", "self", ",", "hash_name", ",", "bucket_key", ",", "v", ",", "data", ",", "redis_object", ")", ":", "redis_key", "=", "self", ".", "_format_redis_key", "(", "hash_name", ",", "bucket_key", ")", "val_dict", "=", "{", "}", "# Depend...	35.076923	0.001422
def remove_child(self, idx=None, *, name=None, node=None): """Remove a child node from the current node instance. :param idx: Index of child node to be removed. :type idx: int :param name: The first child node found with «name» will be removed. :type name: str :param n...	[ "def", "remove_child", "(", "self", ",", "idx", "=", "None", ",", "*", ",", "name", "=", "None", ",", "node", "=", "None", ")", ":", "if", "(", "idx", "and", "isinstance", "(", "idx", ",", "int", ")", "and", "-", "len", "(", "self", ".", "child...	37.714286	0.009234
def compare_password(expected, actual): """Compare two 64byte encoded passwords.""" if expected == actual: return True, "OK" msg = [] ver_exp = expected[-8:].rstrip() ver_act = actual[-8:].rstrip() if expected[:-8] != actual[:-8]: msg.append("Password mismatch") if ver_exp !...	[ "def", "compare_password", "(", "expected", ",", "actual", ")", ":", "if", "expected", "==", "actual", ":", "return", "True", ",", "\"OK\"", "msg", "=", "[", "]", "ver_exp", "=", "expected", "[", "-", "8", ":", "]", ".", "rstrip", "(", ")", "ver_act"...	34.142857	0.002037
def parse_include(self, node): """ Parses <Include> @param node: Node containing the <Include> element @type node: xml.etree.Element @raise ParseError: Raised when the file to be included is not specified. """ if not self.include_includes: if self.m...	[ "def", "parse_include", "(", "self", ",", "node", ")", ":", "if", "not", "self", ".", "include_includes", ":", "if", "self", ".", "model", ".", "debug", ":", "print", "(", "\"Ignoring included LEMS file: %s\"", "%", "node", ".", "lattrib", "[", "'file'", "...	38.545455	0.011507
def server_systems(self): """ Retrieve a list of available systems. """ response = self._post(self.apiurl + "/v2/server/systems", data={'apikey': self.apikey}) return self._raise_or_extract(response)	[ "def", "server_systems", "(", "self", ")", ":", "response", "=", "self", ".", "_post", "(", "self", ".", "apiurl", "+", "\"/v2/server/systems\"", ",", "data", "=", "{", "'apikey'", ":", "self", ".", "apikey", "}", ")", "return", "self", ".", "_raise_or_e...	33.428571	0.0125
def _check_region_for_parsing(number, default_region): """Checks to see that the region code used is valid, or if it is not valid, that the number to parse starts with a + symbol so that we can attempt to infer the region from the number. Returns False if it cannot use the region provided and the regio...	[ "def", "_check_region_for_parsing", "(", "number", ",", "default_region", ")", ":", "if", "not", "_is_valid_region_code", "(", "default_region", ")", ":", "# If the number is None or empty, we can't infer the region.", "if", "number", "is", "None", "or", "len", "(", "nu...	46	0.001522
def add_symbol(self, name, string=None): """ Add a symbol with key `name` to `scipy_data_fitting.Model.symbols`. Optionally, specify an alternative `string` to pass to [`sympy.Symbol`][1], otherwise `name` is used. [1]: http://docs.sympy.org/dev/modules/core.html#id4 """...	[ "def", "add_symbol", "(", "self", ",", "name", ",", "string", "=", "None", ")", ":", "if", "not", "string", ":", "string", "=", "name", "self", ".", "symbols", "[", "name", "]", "=", "sympy", ".", "Symbol", "(", "string", ")" ]	39.8	0.009828
def tfmer_clas_split(model:nn.Module) -> List[nn.Module]: "Split a RNN `model` in groups for differential learning rates." encoder = model[0].module n = len(encoder.layers)//3 groups = [[encoder.encoder], list(encoder.layers[:n]), list(encoder.layers[n:2n]), list(encoder.layers[2n:])] return group...	[ "def", "tfmer_clas_split", "(", "model", ":", "nn", ".", "Module", ")", "->", "List", "[", "nn", ".", "Module", "]", ":", "encoder", "=", "model", "[", "0", "]", ".", "module", "n", "=", "len", "(", "encoder", ".", "layers", ")", "//", "3", "grou...	55.166667	0.008929
def dispatch_hook(key, hooks, hook_data, kwargs): """Dispatches a hook dictionary on a given piece of data.""" hooks = hooks or {} hooks = hooks.get(key) if hooks: if hasattr(hooks, '__call__'): hooks = [hooks] for hook in hooks: _hook_data = hook(hook_data, k...	[ "def", "dispatch_hook", "(", "key", ",", "hooks", ",", "hook_data", ",", "", "", "kwargs", ")", ":", "hooks", "=", "hooks", "or", "{", "}", "hooks", "=", "hooks", ".", "get", "(", "key", ")", "if", "hooks", ":", "if", "hasattr", "(", "hooks", "...	34.5	0.002353
def run_cli_options(args): """ Quick implementation of Python interpreter's -m, -c and file execution. The resulting dictionary is imported into global namespace, just in case someone is using interactive mode. We try to keep argument order as to pass them correctly to the subcommands. """ ...	[ "def", "run_cli_options", "(", "args", ")", ":", "if", "_interactive_mode", "(", "args", ".", "interactive", ")", ":", "os", ".", "environ", "[", "'PYTHONINSPECT'", "]", "=", "'1'", "if", "in_ipython", "(", ")", ":", "return", "exclusive_choices", "=", "["...	38.25	0.001912
def _validate_file_roots(file_roots): ''' If the file_roots option has a key that is None then we will error out, just replace it with an empty list ''' if not isinstance(file_roots, dict): log.warning('The file_roots parameter is not properly formatted,' ' using defaults...	[ "def", "_validate_file_roots", "(", "file_roots", ")", ":", "if", "not", "isinstance", "(", "file_roots", ",", "dict", ")", ":", "log", ".", "warning", "(", "'The file_roots parameter is not properly formatted,'", "' using defaults'", ")", "return", "{", "'base'", "...	43.3	0.002262
def get_args(get_item): """Parse env, key, default out of input dict. Args: get_item: dict. contains keys env/key/default Returns: (env, key, has_default, default) tuple, where env: str. env var name. key: str. save env value to this context key. has_def...	[ "def", "get_args", "(", "get_item", ")", ":", "if", "not", "isinstance", "(", "get_item", ",", "dict", ")", ":", "raise", "ContextError", "(", "'envGet must contain a list of dicts.'", ")", "env", "=", "get_item", ".", "get", "(", "'env'", ",", "None", ")", ...	27.926829	0.000844
def rsem_calculate_expression(bam_file, rsem_genome_dir, samplename, build, out_dir, cores=1): """ works only in unstranded mode for now (--forward-prob 0.5) """ if not utils.which("rsem-calculate-expression"): logger.info("Skipping RSEM because rsem-calculate-expre...	[ "def", "rsem_calculate_expression", "(", "bam_file", ",", "rsem_genome_dir", ",", "samplename", ",", "build", ",", "out_dir", ",", "cores", "=", "1", ")", ":", "if", "not", "utils", ".", "which", "(", "\"rsem-calculate-expression\"", ")", ":", "logger", ".", ...	42.5	0.000885
def authenticated_request(self, endpoint, method='GET', params=None, data=None): ''' Send a request to the given Wunderlist API with 'X-Access-Token' and 'X-Client-ID' headers and ensure the response code is as expected given the request type Params: endpoint -- API endpoint to send req...	[ "def", "authenticated_request", "(", "self", ",", "endpoint", ",", "method", "=", "'GET'", ",", "params", "=", "None", ",", "data", "=", "None", ")", ":", "headers", "=", "{", "'X-Access-Token'", ":", "self", ".", "access_token", ",", "'X-Client-ID'", ":",...	43.117647	0.009346
def calc_zscale(self, data, contrast=0.25, num_points=1000, num_per_row=None): """ From the IRAF documentation: The zscale algorithm is designed to display the image values near the median image value without the time consuming process of computing a ful...	[ "def", "calc_zscale", "(", "self", ",", "data", ",", "contrast", "=", "0.25", ",", "num_points", "=", "1000", ",", "num_per_row", "=", "None", ")", ":", "assert", "len", "(", "data", ".", "shape", ")", ">=", "2", ",", "AutoCutsError", "(", "\"input dat...	40.502959	0.001996
def limits(self,x1,x2,y1,y2): """Set the coordinate boundaries of plot""" import math self.x1=x1 self.x2=x2 self.y1=y1 self.y2=y2 self.xscale=(self.cx2-self.cx1)/(self.x2-self.x1) self.yscale=(self.cy2-self.cy1)/(self.y2-self.y1) ra1=self.x1 ra2=self.x2...	[ "def", "limits", "(", "self", ",", "x1", ",", "x2", ",", "y1", ",", "y2", ")", ":", "import", "math", "self", ".", "x1", "=", "x1", "self", ".", "x2", "=", "x2", "self", ".", "y1", "=", "y1", "self", ".", "y2", "=", "y2", "self", ".", "xsca...	27.526316	0.07024
def backup_location(src, loc=None): ''' Writes Backups of locations :param src: The source file/folder to backup :param loc: The target folder to backup into The backup will be called `src` + :func:`util.system.get_timestamp`. * If `loc` left to none, the backup gets wr...	[ "def", "backup_location", "(", "src", ",", "loc", "=", "None", ")", ":", "from", "photon", ".", "util", ".", "system", "import", "get_timestamp", "src", "=", "_path", ".", "realpath", "(", "src", ")", "if", "not", "loc", "or", "not", "loc", ".", "sta...	29.384615	0.001267
def all_equal(left, right, cache=None): """Check whether two objects `left` and `right` are equal. Parameters ---------- left : Union[object, Expr, Node] right : Union[object, Expr, Node] cache : Optional[Dict[Tuple[Node, Node], bool]] A dictionary indicating whether two Nodes are equal...	[ "def", "all_equal", "(", "left", ",", "right", ",", "cache", "=", "None", ")", ":", "if", "cache", "is", "None", ":", "cache", "=", "{", "}", "if", "util", ".", "is_iterable", "(", "left", ")", ":", "# check that left and right are equal length iterables and...	29.758621	0.001122
def sentence_texts(self): """The list of texts representing ``sentences`` layer elements.""" if not self.is_tagged(SENTENCES): self.tokenize_sentences() return self.texts(SENTENCES)	[ "def", "sentence_texts", "(", "self", ")", ":", "if", "not", "self", ".", "is_tagged", "(", "SENTENCES", ")", ":", "self", ".", "tokenize_sentences", "(", ")", "return", "self", ".", "texts", "(", "SENTENCES", ")" ]	42.6	0.009217
def max(self): """ The maximum integer value of a value-set. It is only defined when there is exactly one region. :return: A integer that represents the maximum integer value of this value-set. :rtype: int """ if len(self.regions) != 1: raise ClaripyVSAOper...	[ "def", "max", "(", "self", ")", ":", "if", "len", "(", "self", ".", "regions", ")", "!=", "1", ":", "raise", "ClaripyVSAOperationError", "(", "\"'max()' onlly works on single-region value-sets.\"", ")", "return", "self", ".", "get_si", "(", "next", "(", "iter"...	35.75	0.011364
def _get_baremetal_switches(self, port): """Get switch ip addresses from baremetal transaction. This method is used to extract switch information from the transaction where VNIC_TYPE is baremetal. :param port: Received port transaction :returns: list of all switches :re...	[ "def", "_get_baremetal_switches", "(", "self", ",", "port", ")", ":", "all_switches", "=", "set", "(", ")", "active_switches", "=", "set", "(", ")", "all_link_info", "=", "port", "[", "bc", ".", "portbindings", ".", "PROFILE", "]", "[", "'local_link_informat...	34.827586	0.001927
def check_permission(self, identifiers, permission_s, logical_operator): """ like Yosai's authentication process, the authorization process will raise an Exception to halt further authz checking once Yosai determines that a Subject is unauthorized to receive the requested permission ...	[ "def", "check_permission", "(", "self", ",", "identifiers", ",", "permission_s", ",", "logical_operator", ")", ":", "self", ".", "assert_realms_configured", "(", ")", "permitted", "=", "self", ".", "is_permitted_collective", "(", "identifiers", ",", "permission_s", ...	48	0.001634
def adsb_vehicle_encode(self, ICAO_address, lat, lon, altitude_type, altitude, heading, hor_velocity, ver_velocity, callsign, emitter_type, tslc, flags, squawk): ''' The location and information of an ADSB vehicle ICAO_address : ICAO address (uint32_t) ...	[ "def", "adsb_vehicle_encode", "(", "self", ",", "ICAO_address", ",", "lat", ",", "lon", ",", "altitude_type", ",", "altitude", ",", "heading", ",", "hor_velocity", ",", "ver_velocity", ",", "callsign", ",", "emitter_type", ",", "tslc", ",", "flags", ",", "sq...	79.85	0.008663
def inode(self): """Return the inode number of the entry.""" if self._inode is None: self.stat(follow_symlinks=False) return self._inode	[ "def", "inode", "(", "self", ")", ":", "if", "self", ".", "_inode", "is", "None", ":", "self", ".", "stat", "(", "follow_symlinks", "=", "False", ")", "return", "self", ".", "_inode" ]	33.6	0.011628
def fetch_withdrawals(self, limit: int) -> List[Withdrawal]: """Fetch latest withdrawals, must provide a limit.""" return self._transactions(self._withdrawals, 'withdrawals', limit)	[ "def", "fetch_withdrawals", "(", "self", ",", "limit", ":", "int", ")", "->", "List", "[", "Withdrawal", "]", ":", "return", "self", ".", "_transactions", "(", "self", ".", "_withdrawals", ",", "'withdrawals'", ",", "limit", ")" ]	65	0.010152
def match_bitap(self, text, pattern, loc): """Locate the best instance of 'pattern' in 'text' near 'loc' using the Bitap algorithm. Args: text: The text to search. pattern: The pattern to search for. loc: The location to search around. Returns: Best match index or -1. """ ...	[ "def", "match_bitap", "(", "self", ",", "text", ",", "pattern", ",", "loc", ")", ":", "# Python doesn't have a maxint limit, so ignore this check.", "#if self.Match_MaxBits != 0 and len(pattern) > self.Match_MaxBits:", "# raise ValueError(\"Pattern too long for this application.\")", ...	35.342857	0.011009
def _sprite_map(g, **kwargs): """ Generates a sprite map from the files matching the glob pattern. Uses the keyword-style arguments passed in to control the placement. """ g = StringValue(g).value if not Image: raise Exception("Images manipulation require PIL") if g in sprite_maps:...	[ "def", "_sprite_map", "(", "g", ",", "", "", "kwargs", ")", ":", "g", "=", "StringValue", "(", "g", ")", ".", "value", "if", "not", "Image", ":", "raise", "Exception", "(", "\"Images manipulation require PIL\"", ")", "if", "g", "in", "sprite_maps", ":"...	43.248705	0.000703
def get_cluster_health( self, nodes_health_state_filter=0, applications_health_state_filter=0, events_health_state_filter=0, exclude_health_statistics=False, include_system_application_health_statistics=False, timeout=60, custom_headers=None, raw=False, **operation_config): """Gets the health of a S...	[ "def", "get_cluster_health", "(", "self", ",", "nodes_health_state_filter", "=", "0", ",", "applications_health_state_filter", "=", "0", ",", "events_health_state_filter", "=", "0", ",", "exclude_health_statistics", "=", "False", ",", "include_system_application_health_stat...	56.306748	0.001071
def export_data_json(self, return_response_object, chunk_size=1024, path=None, data_type_name=None, date_range=None, delimiter=None, start_date_time=None, end_date_time=None, omit_fields=None, only_fields=None, campaign_id=None): """ Custom Keyword arguments: 1. return_resp...	[ "def", "export_data_json", "(", "self", ",", "return_response_object", ",", "chunk_size", "=", "1024", ",", "path", "=", "None", ",", "data_type_name", "=", "None", ",", "date_range", "=", "None", ",", "delimiter", "=", "None", ",", "start_date_time", "=", "...	33.045455	0.036509
def add_zone(self, spatial_unit, container_id, name='', description='', visible=True, reuse=0, drop_behavior_type=None): """container_id is a targetId that the zone belongs to """ if not isinstance(spatial_unit, abc_mapping_primitives.SpatialUnit): raise InvalidArgument('zone is not ...	[ "def", "add_zone", "(", "self", ",", "spatial_unit", ",", "container_id", ",", "name", "=", "''", ",", "description", "=", "''", ",", "visible", "=", "True", ",", "reuse", "=", "0", ",", "drop_behavior_type", "=", "None", ")", ":", "if", "not", "isinst...	46.862069	0.002163
def sectionWalker(section,callback,args,walkTrace=tuple(),kwargs): """ callback needs to be a function that handles different Section elements appropriately walkTrace needs to be a tuple, indicate the route to the section, e.g. (1,2,0) """ callback(section,args,walkT...	[ "def", "sectionWalker", "(", "section", ",", "callback", ",", "", "args", ",", "walkTrace", "=", "tuple", "(", ")", ",", "", "", "kwargs", ")", ":", "callback", "(", "section", ",", "", "args", ",", "walkTrace", "=", "walkTrace", ",", "case", "="...	49.3125	0.03607
def initialize(): """IMPORTANT: Call this function at the beginning of your program.""" try: requests.get('http://localhost:4242/poll') state['connected_to_bot'] = True except requests.exceptions.ConnectionError: state['connected_to_bot'] = False # set up turtle state['windo...	[ "def", "initialize", "(", ")", ":", "try", ":", "requests", ".", "get", "(", "'http://localhost:4242/poll'", ")", "state", "[", "'connected_to_bot'", "]", "=", "True", "except", "requests", ".", "exceptions", ".", "ConnectionError", ":", "state", "[", "'connec...	30.764706	0.001855
def _get_children_path_interval(cls, path): """:returns: An interval of all possible children paths for a node.""" return (path + cls.alphabet[0] * cls.steplen, path + cls.alphabet[-1] * cls.steplen)	[ "def", "_get_children_path_interval", "(", "cls", ",", "path", ")", ":", "return", "(", "path", "+", "cls", ".", "alphabet", "[", "0", "]", "", "cls", ".", "steplen", ",", "path", "+", "cls", ".", "alphabet", "[", "-", "1", "]", "", "cls", ".", ...	57	0.008658
def com_google_fonts_check_metadata_valid_copyright(font_metadata): """Copyright notices match canonical pattern in METADATA.pb""" import re string = font_metadata.copyright does_match = re.search(r'Copyright [0-9]{4} The .* Project Authors \([^\@]*\)', string) if does_match: yi...	[ "def", "com_google_fonts_check_metadata_valid_copyright", "(", "font_metadata", ")", ":", "import", "re", "string", "=", "font_metadata", ".", "copyright", "does_match", "=", "re", ".", "search", "(", "r'Copyright [0-9]{4} The .* Project Authors \\([^\\@]*\\)'", ",", "strin...	43.466667	0.013514
def segment_allocation_find(context, lock_mode=False, **filters): """Query for segment allocations.""" range_ids = filters.pop("segment_allocation_range_ids", None) query = context.session.query(models.SegmentAllocation) if lock_mode: query = query.with_lockmode("update") query = query.fil...	[ "def", "segment_allocation_find", "(", "context", ",", "lock_mode", "=", "False", ",", "", "", "filters", ")", ":", "range_ids", "=", "filters", ".", "pop", "(", "\"segment_allocation_range_ids\"", ",", "None", ")", "query", "=", "context", ".", "session", ...	33.0625	0.001838
def add_node(self, node): """ Add a node to this network, let the node know which network it's on. """ if _debug: Network._debug("add_node %r", node) self.nodes.append(node) node.lan = self # update the node name if not node.name: node.name = '%s:%s' % (self...	[ "def", "add_node", "(", "self", ",", "node", ")", ":", "if", "_debug", ":", "Network", ".", "_debug", "(", "\"add_node %r\"", ",", "node", ")", "self", ".", "nodes", ".", "append", "(", "node", ")", "node", ".", "lan", "=", "self", "# update the node n...	33.1	0.011765
def expect_regex(self, pattern, timeout=3, regex_options=0): """Wait for a match to the regex in pattern to appear on the stream. Waits for input matching the regex pattern for up to timeout seconds. If a match is found, a :class:`RegexMatch` result is returned. If no match is fou...	[ "def", "expect_regex", "(", "self", ",", "pattern", ",", "timeout", "=", "3", ",", "regex_options", "=", "0", ")", ":", "return", "self", ".", "expect", "(", "RegexSearcher", "(", "pattern", ",", "regex_options", ")", ",", "timeout", ")" ]	53.533333	0.002448
def delete(self, id=None, q=None, commit=None, softCommit=False, waitFlush=None, waitSearcher=None, handler='update'): # NOQA: A002 """ Deletes documents. Requires either ``id`` or ``query``. ``id`` is if you know the specific document id to remove. Note that ``id`` can also be a lis...	[ "def", "delete", "(", "self", ",", "id", "=", "None", ",", "q", "=", "None", ",", "commit", "=", "None", ",", "softCommit", "=", "False", ",", "waitFlush", "=", "None", ",", "waitSearcher", "=", "None", ",", "handler", "=", "'update'", ")", ":", "#...	40.146341	0.002372
def add_row_group(self, tables, collapsed=True): """ Adds a group over all the given tables (will include any rows between the first row over all tables, and the last row over all tables) Initially collapsed if collapsed is True (True by default) """ self.__groups.append(...	[ "def", "add_row_group", "(", "self", ",", "tables", ",", "collapsed", "=", "True", ")", ":", "self", ".", "__groups", ".", "append", "(", "(", "tables", ",", "collapsed", ")", ")" ]	47.714286	0.008824
def sine(x): ''' sine(x) is equivalent to sin(x) except that it also works on sparse arrays. ''' if sps.issparse(x): x = x.copy() x.data = np.sine(x.data) return x else: return np.sin(x)	[ "def", "sine", "(", "x", ")", ":", "if", "sps", ".", "issparse", "(", "x", ")", ":", "x", "=", "x", ".", "copy", "(", ")", "x", ".", "data", "=", "np", ".", "sine", "(", "x", ".", "data", ")", "return", "x", "else", ":", "return", "np", "...	24.666667	0.008696
def trans(ele, standard=False): """Translates esprima syntax tree to python by delegating to appropriate translating node""" try: node = globals().get(ele['type']) if not node: raise NotImplementedError('%s is not supported!' % ele['type']) if standard: node = nod...	[ "def", "trans", "(", "ele", ",", "standard", "=", "False", ")", ":", "try", ":", "node", "=", "globals", "(", ")", ".", "get", "(", "ele", "[", "'type'", "]", ")", "if", "not", "node", ":", "raise", "NotImplementedError", "(", "'%s is not supported!'",...	35.384615	0.008475
def macshim(): """Shim to run 32-bit on 64-bit mac as a sub-process""" import subprocess, sys subprocess.call([ sys.argv[0] + '32' ]+sys.argv[1:], env={"VERSIONER_PYTHON_PREFER_32_BIT":"yes"} )	[ "def", "macshim", "(", ")", ":", "import", "subprocess", ",", "sys", "subprocess", ".", "call", "(", "[", "sys", ".", "argv", "[", "0", "]", "+", "'32'", "]", "+", "sys", ".", "argv", "[", "1", ":", "]", ",", "env", "=", "{", "\"VERSIONER_PYTHON_...	27.875	0.017391
def generate_timestamped_string(subject="test", number_of_random_chars=4): """ Generate time-stamped string. Format as follows... `2013-01-31_14:12:23_SubjectString_a3Zg` Kwargs: subject (str): String to use as subject. number_of_random_chars (int) : Number of random characters to app...	[ "def", "generate_timestamped_string", "(", "subject", "=", "\"test\"", ",", "number_of_random_chars", "=", "4", ")", ":", "random_str", "=", "generate_random_string", "(", "number_of_random_chars", ")", "timestamp", "=", "generate_timestamp", "(", ")", "return", "u\"{...	38.291667	0.002123
def cardinality(self): ''' Obtain the cardinality string. Example: '1C' for a conditional link with a single instance [0..1] 'MC' for a link with any number of instances [0..] 'M' for a more than one instance [1..] 'M' for a link wi...	[ "def", "cardinality", "(", "self", ")", ":", "if", "self", ".", "many", ":", "s", "=", "'M'", "else", ":", "s", "=", "'1'", "if", "self", ".", "conditional", ":", "s", "+=", "'C'", "return", "s" ]	28.388889	0.00947
def normalize_name(s): """Convert a string into a valid python attribute name. This function is called to convert ASCII strings to something that can pass as python attribute name, to be used with namedtuples. >>> str(normalize_name('class')) 'class_' >>> str(normalize_name('a-name')) 'a_na...	[ "def", "normalize_name", "(", "s", ")", ":", "s", "=", "s", ".", "replace", "(", "'-'", ",", "'_'", ")", ".", "replace", "(", "'.'", ",", "'_'", ")", ".", "replace", "(", "' '", ",", "'_'", ")", "if", "s", "in", "keyword", ".", "kwlist", ":", ...	28.962963	0.002475
def validate(self, result, spec): # noqa Yes, it's too complex. """Validate that the result has the correct structure.""" if spec is None: # None matches anything. return if isinstance(spec, dict): if not isinstance(result, dict): raise ValueE...	[ "def", "validate", "(", "self", ",", "result", ",", "spec", ")", ":", "# noqa Yes, it's too complex.", "if", "spec", "is", "None", ":", "# None matches anything.", "return", "if", "isinstance", "(", "spec", ",", "dict", ")", ":", "if", "not", "isinstance", "...	48.026316	0.001074
def rnow( format='%Y-%m-%d %H:%M:%S', in_utc=False): """rnow Get right now as a string formatted datetime :param format: string output format for datetime :param in_utc: bool timezone in utc or local time """ if in_utc: return datetime.datetime.utcnow().strftime( ...	[ "def", "rnow", "(", "format", "=", "'%Y-%m-%d %H:%M:%S'", ",", "in_utc", "=", "False", ")", ":", "if", "in_utc", ":", "return", "datetime", ".", "datetime", ".", "utcnow", "(", ")", ".", "strftime", "(", "format", ")", "else", ":", "return", "datetime", ...	23.352941	0.002421
def log_trial(args): ''''get trial log path''' trial_id_path_dict = {} nni_config = Config(get_config_filename(args)) rest_port = nni_config.get_config('restServerPort') rest_pid = nni_config.get_config('restServerPid') if not detect_process(rest_pid): print_error('Experiment is not runn...	[ "def", "log_trial", "(", "args", ")", ":", "trial_id_path_dict", "=", "{", "}", "nni_config", "=", "Config", "(", "get_config_filename", "(", "args", ")", ")", "rest_port", "=", "nni_config", ".", "get_config", "(", "'restServerPort'", ")", "rest_pid", "=", ...	38.65625	0.001577
async def pong(self, message: bytes=b'') -> None: """Send pong message.""" if isinstance(message, str): message = message.encode('utf-8') await self._send_frame(message, WSMsgType.PONG)	[ "async", "def", "pong", "(", "self", ",", "message", ":", "bytes", "=", "b''", ")", "->", "None", ":", "if", "isinstance", "(", "message", ",", "str", ")", ":", "message", "=", "message", ".", "encode", "(", "'utf-8'", ")", "await", "self", ".", "_...	43.4	0.0181
def write_json(json_obj, filename, mode="w", print_pretty=True): '''write_json will (optionally,pretty print) a json object to file Parameters ========== json_obj: the dict to print to json filename: the output file to write to pretty_print: if True, will use nicer formatting ...	[ "def", "write_json", "(", "json_obj", ",", "filename", ",", "mode", "=", "\"w\"", ",", "print_pretty", "=", "True", ")", ":", "with", "open", "(", "filename", ",", "mode", ")", "as", "filey", ":", "if", "print_pretty", ":", "filey", ".", "writelines", ...	34.066667	0.001905
def query(self, query): '''Returns objects matching criteria expressed in `query`. Follows links.''' results = super(SymlinkDatastore, self).query(query) return self._follow_link_gen(results)	[ "def", "query", "(", "self", ",", "query", ")", ":", "results", "=", "super", "(", "SymlinkDatastore", ",", "self", ")", ".", "query", "(", "query", ")", "return", "self", ".", "_follow_link_gen", "(", "results", ")" ]	50	0.009852
def Fold(seglist1, seglist2): """ An iterator that generates the results of taking the intersection of seglist1 with each segment in seglist2 in turn. In each result, the segment start and stop values are adjusted to be with respect to the start of the corresponding segment in seglist2. See also the segmentlist...	[ "def", "Fold", "(", "seglist1", ",", "seglist2", ")", ":", "for", "seg", "in", "seglist2", ":", "yield", "(", "seglist1", "&", "segments", ".", "segmentlist", "(", "[", "seg", "]", ")", ")", ".", "shift", "(", "-", "seg", "[", "0", "]", ")" ]	37.666667	0.022654
def FindUniqueId(dic): """Return a string not used as a key in the dictionary dic""" name = str(len(dic)) while name in dic: # Use bigger numbers so it is obvious when an id is picked randomly. name = str(random.randint(1000000, 999999999)) return name	[ "def", "FindUniqueId", "(", "dic", ")", ":", "name", "=", "str", "(", "len", "(", "dic", ")", ")", "while", "name", "in", "dic", ":", "# Use bigger numbers so it is obvious when an id is picked randomly.", "name", "=", "str", "(", "random", ".", "randint", "("...	37.428571	0.018657
def hicpro_capture_chart (self): """ Generate Capture Hi-C plot""" keys = OrderedDict() keys['valid_pairs_on_target_cap_cap'] = { 'color': '#0039e6', 'name': 'Capture-Capture interactions' } keys['valid_pairs_on_target_cap_rep'] = { 'color': '#809fff', 'name': 'Capture-Reporter interac...	[ "def", "hicpro_capture_chart", "(", "self", ")", ":", "keys", "=", "OrderedDict", "(", ")", "keys", "[", "'valid_pairs_on_target_cap_cap'", "]", "=", "{", "'color'", ":", "'#0039e6'", ",", "'name'", ":", "'Capture-Capture interactions'", "}", "keys", "[", "'vali...	38.8	0.014085
def deprecated(use_instead=None): """This is a decorator which can be used to mark functions as deprecated. It will result in a warning being emitted when the function is used.""" def wrapped(func): @wraps(func) def new_func(args, *kwargs): message = "Call to deprecated fu...	[ "def", "deprecated", "(", "use_instead", "=", "None", ")", ":", "def", "wrapped", "(", "func", ")", ":", "@", "wraps", "(", "func", ")", "def", "new_func", "(", "", "args", ",", "", "*", "kwargs", ")", ":", "message", "=", "\"Call to deprecated funct...	36.5625	0.001667
def iterargs(self): """ uses the singular name as key """ iterargs = OrderedDict() for name in self._iterargs: plural = self._profile.iterargs[name] iterargs[name] = tuple(self._values[plural]) return iterargs	[ "def", "iterargs", "(", "self", ")", ":", "iterargs", "=", "OrderedDict", "(", ")", "for", "name", "in", "self", ".", "_iterargs", ":", "plural", "=", "self", ".", "_profile", ".", "iterargs", "[", "name", "]", "iterargs", "[", "name", "]", "=", "tup...	33	0.012658
def get(self, default=None, callback=None): u"""Returns leaf's value.""" value = self._xml.text if self._xml.text else default return callback(value) if callback else value	[ "def", "get", "(", "self", ",", "default", "=", "None", ",", "callback", "=", "None", ")", ":", "value", "=", "self", ".", "_xml", ".", "text", "if", "self", ".", "_xml", ".", "text", "else", "default", "return", "callback", "(", "value", ")", "if"...	48.25	0.010204
def get_charset(content_type): """Function used to retrieve the charset from a content-type.If there is no charset in the content type then the charset defined on DEFAULT_CHARSET will be returned :param content_type: A string containing a Content-Type header :returns: A string cont...	[ "def", "get_charset", "(", "content_type", ")", ":", "if", "not", "content_type", ":", "return", "DEFAULT_CHARSET", "matched", "=", "_get_charset_re", ".", "search", "(", "content_type", ")", "if", "matched", ":", "# Extract the charset and strip its double quotes", "...	37.3125	0.001634
def generate_form(model, form=None, fields=False, exclude=False): """ Generate a form from a model. :param model: A Django model. :param form: A Django form. :param fields: A list of fields to include in this form. :param exclude: A list of fields to exclude in this form. """ _model, _f...	[ "def", "generate_form", "(", "model", ",", "form", "=", "None", ",", "fields", "=", "False", ",", "exclude", "=", "False", ")", ":", "_model", ",", "_fields", ",", "_exclude", "=", "model", ",", "fields", ",", "exclude", "class", "Form", "(", "form", ...	26.818182	0.001637
def get_sequence_rules_for_assessment_part(self, assessment_part_id): """Gets a ``SequenceRuleList`` for the given source assessment part. arg: assessment_part_id (osid.id.Id): an assessment part ``Id`` return: (osid.assessment.authoring.SequenceRuleList) - the ...	[ "def", "get_sequence_rules_for_assessment_part", "(", "self", ",", "assessment_part_id", ")", ":", "# Implemented from template for", "# osid.learning.ActivityLookupSession.get_activities_for_objective_template", "# NOTE: This implementation currently ignores plenary view", "collection", "="...	51.869565	0.001646
def flatten_list(lobj): """ Recursively flattens a list. :param lobj: List to flatten :type lobj: list :rtype: list For example: >>> import pmisc >>> pmisc.flatten_list([1, [2, 3, [4, 5, 6]], 7]) [1, 2, 3, 4, 5, 6, 7] """ ret = [] for item in lobj: ...	[ "def", "flatten_list", "(", "lobj", ")", ":", "ret", "=", "[", "]", "for", "item", "in", "lobj", ":", "if", "isinstance", "(", "item", ",", "list", ")", ":", "for", "sub_item", "in", "flatten_list", "(", "item", ")", ":", "ret", ".", "append", "(",...	20.391304	0.002037
def write_catalog(filename, catalog, fmt=None, meta=None, prefix=None): """ Write a catalog (list of sources) to a file with format determined by extension. Sources must be of type :class:`AegeanTools.models.OutputSource`, :class:`AegeanTools.models.SimpleSource`, or :class:`AegeanTools.models.IslandSo...	[ "def", "write_catalog", "(", "filename", ",", "catalog", ",", "fmt", "=", "None", ",", "meta", "=", "None", ",", "prefix", "=", "None", ")", ":", "if", "meta", "is", "None", ":", "meta", "=", "{", "}", "if", "prefix", "is", "None", ":", "pre", "=...	34.589474	0.002367
def encode(data: Union[str, bytes]) -> str: """ Return Base58 string from data :param data: Bytes or string data """ return ensure_str(base58.b58encode(ensure_bytes(data)))	[ "def", "encode", "(", "data", ":", "Union", "[", "str", ",", "bytes", "]", ")", "->", "str", ":", "return", "ensure_str", "(", "base58", ".", "b58encode", "(", "ensure_bytes", "(", "data", ")", ")", ")" ]	29.571429	0.00939
def install_integration(self, id, **kwargs): # noqa: E501 """Installs a Wavefront integration # noqa: E501 # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, please pass async_req=True >>> thread = api.install_integrat...	[ "def", "install_integration", "(", "self", ",", "id", ",", "", "", "kwargs", ")", ":", "# noqa: E501", "kwargs", "[", "'_return_http_data_only'", "]", "=", "True", "if", "kwargs", ".", "get", "(", "'async_req'", ")", ":", "return", "self", ".", "install_...	42.190476	0.002208
def create_big_thumbnail(self, token, bitstream_id, item_id, width=575): """ Create a big thumbnail for the given bitstream with the given width. It is used as the main image of the given item and shown in the item view page. :param token: A valid token for the user in question....	[ "def", "create_big_thumbnail", "(", "self", ",", "token", ",", "bitstream_id", ",", "item_id", ",", "width", "=", "575", ")", ":", "parameters", "=", "dict", "(", ")", "parameters", "[", "'token'", "]", "=", "token", "parameters", "[", "'bitstreamId'", "]"...	43.769231	0.00172
def stop(name, lbn, target, profile='default', tgt_type='glob'): ''' .. versionchanged:: 2017.7.0 The ``expr_form`` argument has been renamed to ``tgt_type``, earlier releases must use ``expr_form``. Stop the named worker from the lbn load balancers at the targeted minions The worker wo...	[ "def", "stop", "(", "name", ",", "lbn", ",", "target", ",", "profile", "=", "'default'", ",", "tgt_type", "=", "'glob'", ")", ":", "return", "_talk2modjk", "(", "name", ",", "lbn", ",", "target", ",", "'worker_stop'", ",", "profile", ",", "tgt_type", "...	31.238095	0.001479
def containsSettingsGroup(groupName, settings=None): """ Returns True if the settings contain a group with the name groupName. Works recursively when the groupName is a slash separated path. """ def _containsPath(path, settings): "Aux function for containsSettingsGroup. Does the actual recur...	[ "def", "containsSettingsGroup", "(", "groupName", ",", "settings", "=", "None", ")", ":", "def", "_containsPath", "(", "path", ",", "settings", ")", ":", "\"Aux function for containsSettingsGroup. Does the actual recursive search.\"", "if", "len", "(", "path", ")", "=...	37.4	0.002086
def read_pot_status(self): """Read the status of the digital pot. Firmware v18+ only. The return value is a dictionary containing the following as unsigned 8-bit integers: FanON, LaserON, FanDACVal, LaserDACVal. :rtype: dict :Example: >>> alpha.read_pot_status() ...	[ "def", "read_pot_status", "(", "self", ")", ":", "# Send the command byte and wait 10 ms", "a", "=", "self", ".", "cnxn", ".", "xfer", "(", "[", "0x13", "]", ")", "[", "0", "]", "sleep", "(", "10e-3", ")", "# Build an array of the results", "res", "=", "[", ...	24.542857	0.00224
def _fit_RSA_marginalized_null(self, Y, X_base, scan_onsets): """ The marginalized version of the null model for Bayesian RSA. The null model assumes no task-related response to the design matrix. Note that there is a naming change of variab...	[ "def", "_fit_RSA_marginalized_null", "(", "self", ",", "Y", ",", "X_base", ",", "scan_onsets", ")", ":", "# Because there is nothing to learn that is shared across", "# participants, we can run each subject in serial.", "# The only fitting required is to re-estimate X0 after", "# each ...	50.829787	0.000411
def ConsultarPuerto(self, sep="\|\|"): "Consulta de Puertos habilitados" ret = self.client.puertoConsultar( auth={ 'token': self.Token, 'sign': self.Sign, 'cuit': self.Cuit, }, )['puertoReturn'] ...	[ "def", "ConsultarPuerto", "(", "self", ",", "sep", "=", "\"\|\|\"", ")", ":", "ret", "=", "self", ".", "client", ".", "puertoConsultar", "(", "auth", "=", "{", "'token'", ":", "self", ".", "Token", ",", "'sign'", ":", "self", ".", "Sign", ",", "'cuit'"...	45.230769	0.01
def register(style, func=None): """注册一个拼音风格实现 :: @register('echo') def echo(pinyin, **kwargs): return pinyin # or register('echo', echo) """ if func is not None: _registry[style] = func return def decorator(func): _registry[styl...	[ "def", "register", "(", "style", ",", "func", "=", "None", ")", ":", "if", "func", "is", "not", "None", ":", "_registry", "[", "style", "]", "=", "func", "return", "def", "decorator", "(", "func", ")", ":", "_registry", "[", "style", "]", "=", "fun...	18.12	0.002096
def get_loglevel(level): """ return logging level object corresponding to a given level passed as a string @str level: name of a syslog log level @rtype: logging, logging level from logging module """ if level == 'debug': return logging.DEBUG elif level == 'notice': retur...	[ "def", "get_loglevel", "(", "level", ")", ":", "if", "level", "==", "'debug'", ":", "return", "logging", ".", "DEBUG", "elif", "level", "==", "'notice'", ":", "return", "logging", ".", "INFO", "elif", "level", "==", "'info'", ":", "return", "logging", "....	31.12	0.001247
def minter(record_uuid, data, pid_type, key): """Mint PIDs for a record.""" pid = PersistentIdentifier.create( pid_type, data[key], object_type='rec', object_uuid=record_uuid, status=PIDStatus.REGISTERED ) for scheme, identifier in data['identifiers'].items(): ...	[ "def", "minter", "(", "record_uuid", ",", "data", ",", "pid_type", ",", "key", ")", ":", "pid", "=", "PersistentIdentifier", ".", "create", "(", "pid_type", ",", "data", "[", "key", "]", ",", "object_type", "=", "'rec'", ",", "object_uuid", "=", "record_...	29.631579	0.001721
def subcellular_locations(self): """Distinct subcellular locations (``location`` in :class:`.models.SubcellularLocation`) :return: all distinct subcellular locations :rtype: list[str] """ return [x[0] for x in self.session.query(models.SubcellularLocation.location).all()]	[ "def", "subcellular_locations", "(", "self", ")", ":", "return", "[", "x", "[", "0", "]", "for", "x", "in", "self", ".", "session", ".", "query", "(", "models", ".", "SubcellularLocation", ".", "location", ")", ".", "all", "(", ")", "]" ]	43.857143	0.01278
def get_short_annotations(annotations): """ Converts full GATK annotation name to the shortened version :param annotations: :return: """ # Annotations need to match VCF header short_name = {'QualByDepth': 'QD', 'FisherStrand': 'FS', 'StrandOddsRatio': 'SOR...	[ "def", "get_short_annotations", "(", "annotations", ")", ":", "# Annotations need to match VCF header", "short_name", "=", "{", "'QualByDepth'", ":", "'QD'", ",", "'FisherStrand'", ":", "'FS'", ",", "'StrandOddsRatio'", ":", "'SOR'", ",", "'ReadPosRankSumTest'", ":", ...	34.761905	0.001333
def fetch_ticker(self) -> Ticker: """Fetch the market ticker.""" return self._fetch('ticker', self.market.code)(self._ticker)()	[ "def", "fetch_ticker", "(", "self", ")", "->", "Ticker", ":", "return", "self", ".", "_fetch", "(", "'ticker'", ",", "self", ".", "market", ".", "code", ")", "(", "self", ".", "_ticker", ")", "(", ")" ]	47	0.013986
def QPSK_rx(fc,N_symb,Rs,EsN0=100,fs=125,lfsr_len=10,phase=0,pulse='src'): """ This function generates """ Ns = int(np.round(fs/Rs)) print('Ns = ', Ns) print('Rs = ', fs/float(Ns)) print('EsN0 = ', EsN0, 'dB') print('phase = ', phase, 'degrees') print('pulse = ', pulse) x, b, dat...	[ "def", "QPSK_rx", "(", "fc", ",", "N_symb", ",", "Rs", ",", "EsN0", "=", "100", ",", "fs", "=", "125", ",", "lfsr_len", "=", "10", ",", "phase", "=", "0", ",", "pulse", "=", "'src'", ")", ":", "Ns", "=", "int", "(", "np", ".", "round", "(", ...	31.4375	0.025097
async def send_animation(self, chat_id: typing.Union[base.Integer, base.String], animation: typing.Union[base.InputFile, base.String], duration: typing.Union[base.Integer, None] = None, width: typing.Unio...	[ "async", "def", "send_animation", "(", "self", ",", "chat_id", ":", "typing", ".", "Union", "[", "base", ".", "Integer", ",", "base", ".", "String", "]", ",", "animation", ":", "typing", ".", "Union", "[", "base", ".", "InputFile", ",", "base", ".", ...	68.046154	0.008469
def insert_json(table=None, bulk_size=1000, concurrency=25, hosts=None, output_fmt=None): """Insert JSON lines fed into stdin into a Crate cluster. If no hosts are specified the statements will be printed. Args: table: Target table na...	[ "def", "insert_json", "(", "table", "=", "None", ",", "bulk_size", "=", "1000", ",", "concurrency", "=", "25", ",", "hosts", "=", "None", ",", "output_fmt", "=", "None", ")", ":", "if", "not", "hosts", ":", "return", "print_only", "(", "table", ")", ...	34.583333	0.000781
def _cmp_by_asn(local_asn, path1, path2): """Select the path based on source (iBGP/eBGP) peer. eBGP path is preferred over iBGP. If both paths are from same kind of peers, return None. """ def get_path_source_asn(path): asn = None if path.source is None: asn = local_asn ...	[ "def", "_cmp_by_asn", "(", "local_asn", ",", "path1", ",", "path2", ")", ":", "def", "get_path_source_asn", "(", "path", ")", ":", "asn", "=", "None", "if", "path", ".", "source", "is", "None", ":", "asn", "=", "local_asn", "else", ":", "asn", "=", "...	31.192308	0.001196
def c_handle_array(objs): """Create ctypes const void ** from a list of MXNet objects with handles. Parameters ---------- objs : list of NDArray/Symbol. MXNet objects. Returns ------- (ctypes.c_void_p * len(objs)) A void ** pointer that can be passed to C API. """ a...	[ "def", "c_handle_array", "(", "objs", ")", ":", "arr", "=", "(", "ctypes", ".", "c_void_p", "*", "len", "(", "objs", ")", ")", "(", ")", "arr", "[", ":", "]", "=", "[", "o", ".", "handle", "for", "o", "in", "objs", "]", "return", "arr" ]	24.625	0.002445
def _to_dict(self): """Return a json dictionary representing this model.""" _dict = {} if hasattr(self, 'language') and self.language is not None: _dict['language'] = self.language if hasattr(self, 'analyzed_text') and self.analyzed_text is not None: _dict['analyz...	[ "def", "_to_dict", "(", "self", ")", ":", "_dict", "=", "{", "}", "if", "hasattr", "(", "self", ",", "'language'", ")", "and", "self", ".", "language", "is", "not", "None", ":", "_dict", "[", "'language'", "]", "=", "self", ".", "language", "if", "...	57.970588	0.000998
def fit_quantile(self, X, y, quantile, max_iter=20, tol=0.01, weights=None): """fit ExpectileGAM to a desired quantile via binary search Parameters ---------- X : array-like, shape (n_samples, m_features) Training vectors, where n_samples is the number of samples ...	[ "def", "fit_quantile", "(", "self", ",", "X", ",", "y", ",", "quantile", ",", "max_iter", "=", "20", ",", "tol", "=", "0.01", ",", "weights", "=", "None", ")", ":", "def", "_within_tol", "(", "a", ",", "b", ",", "tol", ")", ":", "return", "np", ...	33.028986	0.001278
def get_content_html(request): """Retrieve content as HTML using the ident-hash (uuid@version).""" result = _get_content_json() media_type = result['mediaType'] if media_type == COLLECTION_MIMETYPE: content = tree_to_html(result['tree']) else: content = result['content'] resp =...	[ "def", "get_content_html", "(", "request", ")", ":", "result", "=", "_get_content_json", "(", ")", "media_type", "=", "result", "[", "'mediaType'", "]", "if", "media_type", "==", "COLLECTION_MIMETYPE", ":", "content", "=", "tree_to_html", "(", "result", "[", "...	29.733333	0.002174
def action_set(method_name): """ Creates a setter that will call the action method with the context's key as first parameter and the value as second parameter. @param method_name: the name of a method belonging to the action. @type method_name: str """ def action_set(value, context, **_para...	[ "def", "action_set", "(", "method_name", ")", ":", "def", "action_set", "(", "value", ",", "context", ",", "", "", "_params", ")", ":", "method", "=", "getattr", "(", "context", "[", "\"action\"", "]", ",", "method_name", ")", "return", "_set", "(", ...	34.692308	0.00216
def resource_for_link(link, includes, resources=None, locale=None): """Returns the resource that matches the link""" if resources is not None: cache_key = "{0}:{1}:{2}".format( link['sys']['linkType'], link['sys']['id'], locale ) if cache_key in resou...	[ "def", "resource_for_link", "(", "link", ",", "includes", ",", "resources", "=", "None", ",", "locale", "=", "None", ")", ":", "if", "resources", "is", "not", "None", ":", "cache_key", "=", "\"{0}:{1}:{2}\"", ".", "format", "(", "link", "[", "'sys'", "]"...	30.823529	0.001852
def _calc(self, y, w): '''Helper to estimate spatial lag conditioned Markov transition probability matrices based on maximum likelihood techniques. ''' if self.discrete: self.lclass_ids = weights.lag_categorical(w, self.class_ids, ...	[ "def", "_calc", "(", "self", ",", "y", ",", "w", ")", ":", "if", "self", ".", "discrete", ":", "self", ".", "lclass_ids", "=", "weights", ".", "lag_categorical", "(", "w", ",", "self", ".", "class_ids", ",", "ties", "=", "\"tryself\"", ")", "else", ...	37.137931	0.00181
def relation(self, table, origin_field, search_field, destination_field=None, id_field="id"): """ Add a column to the main dataframe from a relation foreign key """ df = self._relation(table, origin_field, search_field, destination_field, id_...	[ "def", "relation", "(", "self", ",", "table", ",", "origin_field", ",", "search_field", ",", "destination_field", "=", "None", ",", "id_field", "=", "\"id\"", ")", ":", "df", "=", "self", ".", "_relation", "(", "table", ",", "origin_field", ",", "search_fi...	42.5	0.011527
def modify(self, dn: str, mod_list: dict) -> None: """ Modify a DN in the LDAP database; See ldap module. Doesn't return a result if transactions enabled. """ _debug("modify", self, dn, mod_list) # need to work out how to reverse changes in mod_list; result in revlist ...	[ "def", "modify", "(", "self", ",", "dn", ":", "str", ",", "mod_list", ":", "dict", ")", "->", "None", ":", "_debug", "(", "\"modify\"", ",", "self", ",", "dn", ",", "mod_list", ")", "# need to work out how to reverse changes in mod_list; result in revlist", "rev...	37.7875	0.000967
def grep(prev, pattern, args, *kw): """The pipe greps the data passed from previous generator according to given regular expression. :param prev: The previous iterator of pipe. :type prev: Pipe :param pattern: The pattern which used to filter out data. :type pattern: str\|unicode\|re pattern ob...	[ "def", "grep", "(", "prev", ",", "pattern", ",", "", "args", ",", "", "*", "kw", ")", ":", "inv", "=", "False", "if", "'inv'", "not", "in", "kw", "else", "kw", ".", "pop", "(", "'inv'", ")", "pattern_obj", "=", "re", ".", "compile", "(", "pat...	32.6	0.00149
def sequence_quality_plot (self): """ Create the HTML for the phred quality score plot """ data = dict() for s_name in self.fastqc_data: try: data[s_name] = {self.avg_bp_from_range(d['base']): d['mean'] for d in self.fastqc_data[s_name]['per_base_sequence_quality']} ...	[ "def", "sequence_quality_plot", "(", "self", ")", ":", "data", "=", "dict", "(", ")", "for", "s_name", "in", "self", ".", "fastqc_data", ":", "try", ":", "data", "[", "s_name", "]", "=", "{", "self", ".", "avg_bp_from_range", "(", "d", "[", "'base'", ...	48.369565	0.010132
def create_jail(name, arch, version="9.0-RELEASE"): ''' Creates a new poudriere jail if one does not exist NOTE creating a new jail will take some time the master is not hanging CLI Example: .. code-block:: bash salt '*' poudriere.create_jail 90amd64 amd64 ''' # Config file mus...	[ "def", "create_jail", "(", "name", ",", "arch", ",", "version", "=", "\"9.0-RELEASE\"", ")", ":", "# Config file must be on system to create a poudriere jail", "_check_config_exists", "(", ")", "# Check if the jail is there", "if", "is_jail", "(", "name", ")", ":", "ret...	26.266667	0.001224
def create_virtualenv(venv=VENV): """Creates the virtual environment and installs PIP only into the virtual environment """ print 'Creating venv...', run_command(['virtualenv', '-q', '--no-site-packages', VENV]) print 'done.' print 'Installing pip in virtualenv...', if not run_command([W...	[ "def", "create_virtualenv", "(", "venv", "=", "VENV", ")", ":", "print", "'Creating venv...'", ",", "run_command", "(", "[", "'virtualenv'", ",", "'-q'", ",", "'--no-site-packages'", ",", "VENV", "]", ")", "print", "'done.'", "print", "'Installing pip in virtualen...	36.571429	0.001905
def tag(self, tagname, message=None, force=True): """Create an annotated tag.""" return git_tag(self.repo_dir, tagname, message=message, force=force)	[ "def", "tag", "(", "self", ",", "tagname", ",", "message", "=", "None", ",", "force", "=", "True", ")", ":", "return", "git_tag", "(", "self", ".", "repo_dir", ",", "tagname", ",", "message", "=", "message", ",", "force", "=", "force", ")" ]	54.333333	0.012121
def insert_sequences_into_tree(aln, moltype, params={}, write_log=True): """Returns a tree from Alignment object aln. aln: an xxx.Alignment object, or data that can be used to build one. moltype: cogent.core.moltype.MolType object params: dict of parameters ...	[ "def", "insert_sequences_into_tree", "(", "aln", ",", "moltype", ",", "params", "=", "{", "}", ",", "write_log", "=", "True", ")", ":", "# convert aln to phy since seq_names need fixed to run through pplacer", "new_aln", "=", "get_align_for_phylip", "(", "StringIO", "("...	31.959184	0.010533
def filter(array, predicates, ty=None): """ Returns a new array, with each element in the original array satisfying the passed-in predicate set to `new_value` Args: array (WeldObject / Numpy.ndarray): Input array predicates (WeldObject / Numpy.ndarray<bool>): Predicate set ty (W...	[ "def", "filter", "(", "array", ",", "predicates", ",", "ty", "=", "None", ")", ":", "weld_obj", "=", "WeldObject", "(", "encoder_", ",", "decoder_", ")", "array_var", "=", "weld_obj", ".", "update", "(", "array", ")", "if", "isinstance", "(", "array", ...	29	0.000855
def from_dict(document): """Create data type definition form Json-like object represenation. Parameters ---------- document : dict Json-like object represenation Returns ------- AttributeType """ # Get the type name from the document ...	[ "def", "from_dict", "(", "document", ")", ":", "# Get the type name from the document", "type_name", "=", "document", "[", "'name'", "]", "if", "type_name", "==", "ATTR_TYPE_INT", ":", "return", "IntType", "(", ")", "elif", "type_name", "==", "ATTR_TYPE_FLOAT", ":...	30.576923	0.002439
def create_order(email, request, addresses=None, shipping_address=None, billing_address=None, shipping_option=None, capture_payment=False): """ Create an order from a basket and customer infomation """ ...	[ "def", "create_order", "(", "email", ",", "request", ",", "addresses", "=", "None", ",", "shipping_address", "=", "None", ",", "billing_address", "=", "None", ",", "shipping_option", "=", "None", ",", "capture_payment", "=", "False", ")", ":", "basket_items", ...	40.75	0.002496
def parse_URL(cls, url, timeout=None, resolve=True, required=False, unresolved_value=DEFAULT_SUBSTITUTION): """Parse URL :param url: url to parse :type url: basestring :param resolve: if true, resolve substitutions :type resolve: boolean :param unresolved_value: assigned...	[ "def", "parse_URL", "(", "cls", ",", "url", ",", "timeout", "=", "None", ",", "resolve", "=", "True", ",", "required", "=", "False", ",", "unresolved_value", "=", "DEFAULT_SUBSTITUTION", ")", ":", "socket_timeout", "=", "socket", ".", "_GLOBAL_DEFAULT_TIMEOUT"...	48.846154	0.008494
def dashboard(request): """Dashboard page""" user = None if request.user.is_authenticated(): user = User.objects.get(username=request.user) latest_results, count_types = get_collaboration_data(user) latest_results.sort(key=lambda elem: elem.modified, reverse=True) context = { ...	[ "def", "dashboard", "(", "request", ")", ":", "user", "=", "None", "if", "request", ".", "user", ".", "is_authenticated", "(", ")", ":", "user", "=", "User", ".", "objects", ".", "get", "(", "username", "=", "request", ".", "user", ")", "latest_results...	28.866667	0.002237

def _add_vector(self, hash_name, bucket_key, v, data, redis_object): ''' Store vector and JSON-serializable data in bucket with specified key. ''' redis_key = self._format_redis_key(hash_name, bucket_key) val_dict = {} # Depending on type (sparse or not) fill value dict...

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35.076923

0.001422

def remove_child(self, idx=None, *, name=None, node=None): """Remove a child node from the current node instance. :param idx: Index of child node to be removed. :type idx: int :param name: The first child node found with «name» will be removed. :type name: str :param n...

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37.714286

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def compare_password(expected, actual): """Compare two 64byte encoded passwords.""" if expected == actual: return True, "OK" msg = [] ver_exp = expected[-8:].rstrip() ver_act = actual[-8:].rstrip() if expected[:-8] != actual[:-8]: msg.append("Password mismatch") if ver_exp !...

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def parse_include(self, node): """ Parses <Include> @param node: Node containing the <Include> element @type node: xml.etree.Element @raise ParseError: Raised when the file to be included is not specified. """ if not self.include_includes: if self.m...

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38.545455

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def server_systems(self): """ Retrieve a list of available systems. """ response = self._post(self.apiurl + "/v2/server/systems", data={'apikey': self.apikey}) return self._raise_or_extract(response)

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33.428571

0.0125

def _check_region_for_parsing(number, default_region): """Checks to see that the region code used is valid, or if it is not valid, that the number to parse starts with a + symbol so that we can attempt to infer the region from the number. Returns False if it cannot use the region provided and the regio...

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46

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def add_symbol(self, name, string=None): """ Add a symbol with key `name` to `scipy_data_fitting.Model.symbols`. Optionally, specify an alternative `string` to pass to [`sympy.Symbol`][1], otherwise `name` is used. [1]: http://docs.sympy.org/dev/modules/core.html#id4 """...

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39.8

0.009828

def tfmer_clas_split(model:nn.Module) -> List[nn.Module]: "Split a RNN `model` in groups for differential learning rates." encoder = model[0].module n = len(encoder.layers)//3 groups = [[encoder.encoder], list(encoder.layers[:n]), list(encoder.layers[n:2*n]), list(encoder.layers[2*n:])] return group...

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55.166667

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def dispatch_hook(key, hooks, hook_data, **kwargs): """Dispatches a hook dictionary on a given piece of data.""" hooks = hooks or {} hooks = hooks.get(key) if hooks: if hasattr(hooks, '__call__'): hooks = [hooks] for hook in hooks: _hook_data = hook(hook_data, **k...

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34.5

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def run_cli_options(args): """ Quick implementation of Python interpreter's -m, -c and file execution. The resulting dictionary is imported into global namespace, just in case someone is using interactive mode. We try to keep argument order as to pass them correctly to the subcommands. """ ...

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38.25

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def _validate_file_roots(file_roots): ''' If the file_roots option has a key that is None then we will error out, just replace it with an empty list ''' if not isinstance(file_roots, dict): log.warning('The file_roots parameter is not properly formatted,' ' using defaults...

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43.3

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def get_args(get_item): """Parse env, key, default out of input dict. Args: get_item: dict. contains keys env/key/default Returns: (env, key, has_default, default) tuple, where env: str. env var name. key: str. save env value to this context key. has_def...

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27.926829

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def rsem_calculate_expression(bam_file, rsem_genome_dir, samplename, build, out_dir, cores=1): """ works only in unstranded mode for now (--forward-prob 0.5) """ if not utils.which("rsem-calculate-expression"): logger.info("Skipping RSEM because rsem-calculate-expre...

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42.5

0.000885

def authenticated_request(self, endpoint, method='GET', params=None, data=None): ''' Send a request to the given Wunderlist API with 'X-Access-Token' and 'X-Client-ID' headers and ensure the response code is as expected given the request type Params: endpoint -- API endpoint to send req...

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43.117647

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def calc_zscale(self, data, contrast=0.25, num_points=1000, num_per_row=None): """ From the IRAF documentation: The zscale algorithm is designed to display the image values near the median image value without the time consuming process of computing a ful...

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40.502959

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def limits(self,x1,x2,y1,y2): """Set the coordinate boundaries of plot""" import math self.x1=x1 self.x2=x2 self.y1=y1 self.y2=y2 self.xscale=(self.cx2-self.cx1)/(self.x2-self.x1) self.yscale=(self.cy2-self.cy1)/(self.y2-self.y1) ra1=self.x1 ra2=self.x2...

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27.526316

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def backup_location(src, loc=None): ''' Writes Backups of locations :param src: The source file/folder to backup :param loc: The target folder to backup into The backup will be called `src` + :func:`util.system.get_timestamp`. * If `loc` left to none, the backup gets wr...

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29.384615

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def all_equal(left, right, cache=None): """Check whether two objects `left` and `right` are equal. Parameters ---------- left : Union[object, Expr, Node] right : Union[object, Expr, Node] cache : Optional[Dict[Tuple[Node, Node], bool]] A dictionary indicating whether two Nodes are equal...

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29.758621

0.001122

def sentence_texts(self): """The list of texts representing ``sentences`` layer elements.""" if not self.is_tagged(SENTENCES): self.tokenize_sentences() return self.texts(SENTENCES)

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42.6

0.009217

def max(self): """ The maximum integer value of a value-set. It is only defined when there is exactly one region. :return: A integer that represents the maximum integer value of this value-set. :rtype: int """ if len(self.regions) != 1: raise ClaripyVSAOper...

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35.75

0.011364

def _get_baremetal_switches(self, port): """Get switch ip addresses from baremetal transaction. This method is used to extract switch information from the transaction where VNIC_TYPE is baremetal. :param port: Received port transaction :returns: list of all switches :re...

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34.827586

0.001927

def check_permission(self, identifiers, permission_s, logical_operator): """ like Yosai's authentication process, the authorization process will raise an Exception to halt further authz checking once Yosai determines that a Subject is unauthorized to receive the requested permission ...

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48

0.001634

def adsb_vehicle_encode(self, ICAO_address, lat, lon, altitude_type, altitude, heading, hor_velocity, ver_velocity, callsign, emitter_type, tslc, flags, squawk): ''' The location and information of an ADSB vehicle ICAO_address : ICAO address (uint32_t) ...

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79.85

0.008663

def inode(self): """Return the inode number of the entry.""" if self._inode is None: self.stat(follow_symlinks=False) return self._inode

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33.6

0.011628

def fetch_withdrawals(self, limit: int) -> List[Withdrawal]: """Fetch latest withdrawals, must provide a limit.""" return self._transactions(self._withdrawals, 'withdrawals', limit)

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65

0.010152

def match_bitap(self, text, pattern, loc): """Locate the best instance of 'pattern' in 'text' near 'loc' using the Bitap algorithm. Args: text: The text to search. pattern: The pattern to search for. loc: The location to search around. Returns: Best match index or -1. """ ...

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35.342857

0.011009

def _sprite_map(g, **kwargs): """ Generates a sprite map from the files matching the glob pattern. Uses the keyword-style arguments passed in to control the placement. """ g = StringValue(g).value if not Image: raise Exception("Images manipulation require PIL") if g in sprite_maps:...

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43.248705

0.000703

def get_cluster_health( self, nodes_health_state_filter=0, applications_health_state_filter=0, events_health_state_filter=0, exclude_health_statistics=False, include_system_application_health_statistics=False, timeout=60, custom_headers=None, raw=False, **operation_config): """Gets the health of a S...

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56.306748

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def export_data_json(self, return_response_object, chunk_size=1024, path=None, data_type_name=None, date_range=None, delimiter=None, start_date_time=None, end_date_time=None, omit_fields=None, only_fields=None, campaign_id=None): """ Custom Keyword arguments: 1. return_resp...

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33.045455

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def add_zone(self, spatial_unit, container_id, name='', description='', visible=True, reuse=0, drop_behavior_type=None): """container_id is a targetId that the zone belongs to """ if not isinstance(spatial_unit, abc_mapping_primitives.SpatialUnit): raise InvalidArgument('zone is not ...

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def sectionWalker(section,callback,*args,walkTrace=tuple(),**kwargs): """ callback needs to be a function that handles different Section elements appropriately walkTrace needs to be a tuple, indicate the route to the section, e.g. (1,2,0) """ callback(section,*args,walkT...

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def initialize(): """IMPORTANT: Call this function at the beginning of your program.""" try: requests.get('http://localhost:4242/poll') state['connected_to_bot'] = True except requests.exceptions.ConnectionError: state['connected_to_bot'] = False # set up turtle state['windo...

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def _get_children_path_interval(cls, path): """:returns: An interval of all possible children paths for a node.""" return (path + cls.alphabet[0] * cls.steplen, path + cls.alphabet[-1] * cls.steplen)

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def com_google_fonts_check_metadata_valid_copyright(font_metadata): """Copyright notices match canonical pattern in METADATA.pb""" import re string = font_metadata.copyright does_match = re.search(r'Copyright [0-9]{4} The .* Project Authors \([^\@]*\)', string) if does_match: yi...

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def segment_allocation_find(context, lock_mode=False, **filters): """Query for segment allocations.""" range_ids = filters.pop("segment_allocation_range_ids", None) query = context.session.query(models.SegmentAllocation) if lock_mode: query = query.with_lockmode("update") query = query.fil...

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def add_node(self, node): """ Add a node to this network, let the node know which network it's on. """ if _debug: Network._debug("add_node %r", node) self.nodes.append(node) node.lan = self # update the node name if not node.name: node.name = '%s:%s' % (self...

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def expect_regex(self, pattern, timeout=3, regex_options=0): """Wait for a match to the regex in *pattern* to appear on the stream. Waits for input matching the regex *pattern* for up to *timeout* seconds. If a match is found, a :class:`RegexMatch` result is returned. If no match is fou...

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def delete(self, id=None, q=None, commit=None, softCommit=False, waitFlush=None, waitSearcher=None, handler='update'): # NOQA: A002 """ Deletes documents. Requires *either* ``id`` or ``query``. ``id`` is if you know the specific document id to remove. Note that ``id`` can also be a lis...

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def add_row_group(self, tables, collapsed=True): """ Adds a group over all the given tables (will include any rows between the first row over all tables, and the last row over all tables) Initially collapsed if collapsed is True (True by default) """ self.__groups.append(...

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def sine(x): ''' sine(x) is equivalent to sin(x) except that it also works on sparse arrays. ''' if sps.issparse(x): x = x.copy() x.data = np.sine(x.data) return x else: return np.sin(x)

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def trans(ele, standard=False): """Translates esprima syntax tree to python by delegating to appropriate translating node""" try: node = globals().get(ele['type']) if not node: raise NotImplementedError('%s is not supported!' % ele['type']) if standard: node = nod...

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def macshim(): """Shim to run 32-bit on 64-bit mac as a sub-process""" import subprocess, sys subprocess.call([ sys.argv[0] + '32' ]+sys.argv[1:], env={"VERSIONER_PYTHON_PREFER_32_BIT":"yes"} )

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def generate_timestamped_string(subject="test", number_of_random_chars=4): """ Generate time-stamped string. Format as follows... `2013-01-31_14:12:23_SubjectString_a3Zg` Kwargs: subject (str): String to use as subject. number_of_random_chars (int) : Number of random characters to app...

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38.291667

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def cardinality(self): ''' Obtain the cardinality string. Example: '1C' for a conditional link with a single instance [0..1] 'MC' for a link with any number of instances [0..*] 'M' for a more than one instance [1..*] 'M' for a link wi...

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def normalize_name(s): """Convert a string into a valid python attribute name. This function is called to convert ASCII strings to something that can pass as python attribute name, to be used with namedtuples. >>> str(normalize_name('class')) 'class_' >>> str(normalize_name('a-name')) 'a_na...

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def validate(self, result, spec): # noqa Yes, it's too complex. """Validate that the result has the correct structure.""" if spec is None: # None matches anything. return if isinstance(spec, dict): if not isinstance(result, dict): raise ValueE...

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def rnow( format='%Y-%m-%d %H:%M:%S', in_utc=False): """rnow Get right now as a string formatted datetime :param format: string output format for datetime :param in_utc: bool timezone in utc or local time """ if in_utc: return datetime.datetime.utcnow().strftime( ...

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def log_trial(args): ''''get trial log path''' trial_id_path_dict = {} nni_config = Config(get_config_filename(args)) rest_port = nni_config.get_config('restServerPort') rest_pid = nni_config.get_config('restServerPid') if not detect_process(rest_pid): print_error('Experiment is not runn...

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async def pong(self, message: bytes=b'') -> None: """Send pong message.""" if isinstance(message, str): message = message.encode('utf-8') await self._send_frame(message, WSMsgType.PONG)

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43.4

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def write_json(json_obj, filename, mode="w", print_pretty=True): '''write_json will (optionally,pretty print) a json object to file Parameters ========== json_obj: the dict to print to json filename: the output file to write to pretty_print: if True, will use nicer formatting ...

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def query(self, query): '''Returns objects matching criteria expressed in `query`. Follows links.''' results = super(SymlinkDatastore, self).query(query) return self._follow_link_gen(results)

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def Fold(seglist1, seglist2): """ An iterator that generates the results of taking the intersection of seglist1 with each segment in seglist2 in turn. In each result, the segment start and stop values are adjusted to be with respect to the start of the corresponding segment in seglist2. See also the segmentlist...

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def FindUniqueId(dic): """Return a string not used as a key in the dictionary dic""" name = str(len(dic)) while name in dic: # Use bigger numbers so it is obvious when an id is picked randomly. name = str(random.randint(1000000, 999999999)) return name

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def hicpro_capture_chart (self): """ Generate Capture Hi-C plot""" keys = OrderedDict() keys['valid_pairs_on_target_cap_cap'] = { 'color': '#0039e6', 'name': 'Capture-Capture interactions' } keys['valid_pairs_on_target_cap_rep'] = { 'color': '#809fff', 'name': 'Capture-Reporter interac...

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def deprecated(use_instead=None): """This is a decorator which can be used to mark functions as deprecated. It will result in a warning being emitted when the function is used.""" def wrapped(func): @wraps(func) def new_func(*args, **kwargs): message = "Call to deprecated fu...

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def iterargs(self): """ uses the singular name as key """ iterargs = OrderedDict() for name in self._iterargs: plural = self._profile.iterargs[name] iterargs[name] = tuple(self._values[plural]) return iterargs

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def get(self, default=None, callback=None): u"""Returns leaf's value.""" value = self._xml.text if self._xml.text else default return callback(value) if callback else value

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def get_charset(content_type): """Function used to retrieve the charset from a content-type.If there is no charset in the content type then the charset defined on DEFAULT_CHARSET will be returned :param content_type: A string containing a Content-Type header :returns: A string cont...

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def generate_form(model, form=None, fields=False, exclude=False): """ Generate a form from a model. :param model: A Django model. :param form: A Django form. :param fields: A list of fields to include in this form. :param exclude: A list of fields to exclude in this form. """ _model, _f...

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def get_sequence_rules_for_assessment_part(self, assessment_part_id): """Gets a ``SequenceRuleList`` for the given source assessment part. arg: assessment_part_id (osid.id.Id): an assessment part ``Id`` return: (osid.assessment.authoring.SequenceRuleList) - the ...

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def flatten_list(lobj): """ Recursively flattens a list. :param lobj: List to flatten :type lobj: list :rtype: list For example: >>> import pmisc >>> pmisc.flatten_list([1, [2, 3, [4, 5, 6]], 7]) [1, 2, 3, 4, 5, 6, 7] """ ret = [] for item in lobj: ...

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def write_catalog(filename, catalog, fmt=None, meta=None, prefix=None): """ Write a catalog (list of sources) to a file with format determined by extension. Sources must be of type :class:`AegeanTools.models.OutputSource`, :class:`AegeanTools.models.SimpleSource`, or :class:`AegeanTools.models.IslandSo...

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def encode(data: Union[str, bytes]) -> str: """ Return Base58 string from data :param data: Bytes or string data """ return ensure_str(base58.b58encode(ensure_bytes(data)))

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def install_integration(self, id, **kwargs): # noqa: E501 """Installs a Wavefront integration # noqa: E501 # noqa: E501 This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, please pass async_req=True >>> thread = api.install_integrat...

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def create_big_thumbnail(self, token, bitstream_id, item_id, width=575): """ Create a big thumbnail for the given bitstream with the given width. It is used as the main image of the given item and shown in the item view page. :param token: A valid token for the user in question....

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def stop(name, lbn, target, profile='default', tgt_type='glob'): ''' .. versionchanged:: 2017.7.0 The ``expr_form`` argument has been renamed to ``tgt_type``, earlier releases must use ``expr_form``. Stop the named worker from the lbn load balancers at the targeted minions The worker wo...

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def containsSettingsGroup(groupName, settings=None): """ Returns True if the settings contain a group with the name groupName. Works recursively when the groupName is a slash separated path. """ def _containsPath(path, settings): "Aux function for containsSettingsGroup. Does the actual recur...

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def read_pot_status(self): """Read the status of the digital pot. Firmware v18+ only. The return value is a dictionary containing the following as unsigned 8-bit integers: FanON, LaserON, FanDACVal, LaserDACVal. :rtype: dict :Example: >>> alpha.read_pot_status() ...

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def _fit_RSA_marginalized_null(self, Y, X_base, scan_onsets): """ The marginalized version of the null model for Bayesian RSA. The null model assumes no task-related response to the design matrix. Note that there is a naming change of variab...

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def ConsultarPuerto(self, sep="||"): "Consulta de Puertos habilitados" ret = self.client.puertoConsultar( auth={ 'token': self.Token, 'sign': self.Sign, 'cuit': self.Cuit, }, )['puertoReturn'] ...

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0.01

def register(style, func=None): """注册一个拼音风格实现 :: @register('echo') def echo(pinyin, **kwargs): return pinyin # or register('echo', echo) """ if func is not None: _registry[style] = func return def decorator(func): _registry[styl...

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def get_loglevel(level): """ return logging level object corresponding to a given level passed as a string @str level: name of a syslog log level @rtype: logging, logging level from logging module """ if level == 'debug': return logging.DEBUG elif level == 'notice': retur...

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def minter(record_uuid, data, pid_type, key): """Mint PIDs for a record.""" pid = PersistentIdentifier.create( pid_type, data[key], object_type='rec', object_uuid=record_uuid, status=PIDStatus.REGISTERED ) for scheme, identifier in data['identifiers'].items(): ...

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def subcellular_locations(self): """Distinct subcellular locations (``location`` in :class:`.models.SubcellularLocation`) :return: all distinct subcellular locations :rtype: list[str] """ return [x[0] for x in self.session.query(models.SubcellularLocation.location).all()]

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def get_short_annotations(annotations): """ Converts full GATK annotation name to the shortened version :param annotations: :return: """ # Annotations need to match VCF header short_name = {'QualByDepth': 'QD', 'FisherStrand': 'FS', 'StrandOddsRatio': 'SOR...

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def fetch_ticker(self) -> Ticker: """Fetch the market ticker.""" return self._fetch('ticker', self.market.code)(self._ticker)()

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def QPSK_rx(fc,N_symb,Rs,EsN0=100,fs=125,lfsr_len=10,phase=0,pulse='src'): """ This function generates """ Ns = int(np.round(fs/Rs)) print('Ns = ', Ns) print('Rs = ', fs/float(Ns)) print('EsN0 = ', EsN0, 'dB') print('phase = ', phase, 'degrees') print('pulse = ', pulse) x, b, dat...

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async def send_animation(self, chat_id: typing.Union[base.Integer, base.String], animation: typing.Union[base.InputFile, base.String], duration: typing.Union[base.Integer, None] = None, width: typing.Unio...

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def insert_json(table=None, bulk_size=1000, concurrency=25, hosts=None, output_fmt=None): """Insert JSON lines fed into stdin into a Crate cluster. If no hosts are specified the statements will be printed. Args: table: Target table na...

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def _cmp_by_asn(local_asn, path1, path2): """Select the path based on source (iBGP/eBGP) peer. eBGP path is preferred over iBGP. If both paths are from same kind of peers, return None. """ def get_path_source_asn(path): asn = None if path.source is None: asn = local_asn ...

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def c_handle_array(objs): """Create ctypes const void ** from a list of MXNet objects with handles. Parameters ---------- objs : list of NDArray/Symbol. MXNet objects. Returns ------- (ctypes.c_void_p * len(objs)) A void ** pointer that can be passed to C API. """ a...

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def _to_dict(self): """Return a json dictionary representing this model.""" _dict = {} if hasattr(self, 'language') and self.language is not None: _dict['language'] = self.language if hasattr(self, 'analyzed_text') and self.analyzed_text is not None: _dict['analyz...

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def fit_quantile(self, X, y, quantile, max_iter=20, tol=0.01, weights=None): """fit ExpectileGAM to a desired quantile via binary search Parameters ---------- X : array-like, shape (n_samples, m_features) Training vectors, where n_samples is the number of samples ...

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33.028986

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def get_content_html(request): """Retrieve content as HTML using the ident-hash (uuid@version).""" result = _get_content_json() media_type = result['mediaType'] if media_type == COLLECTION_MIMETYPE: content = tree_to_html(result['tree']) else: content = result['content'] resp =...

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def action_set(method_name): """ Creates a setter that will call the action method with the context's key as first parameter and the value as second parameter. @param method_name: the name of a method belonging to the action. @type method_name: str """ def action_set(value, context, **_para...

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def resource_for_link(link, includes, resources=None, locale=None): """Returns the resource that matches the link""" if resources is not None: cache_key = "{0}:{1}:{2}".format( link['sys']['linkType'], link['sys']['id'], locale ) if cache_key in resou...

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def _calc(self, y, w): '''Helper to estimate spatial lag conditioned Markov transition probability matrices based on maximum likelihood techniques. ''' if self.discrete: self.lclass_ids = weights.lag_categorical(w, self.class_ids, ...

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def relation(self, table, origin_field, search_field, destination_field=None, id_field="id"): """ Add a column to the main dataframe from a relation foreign key """ df = self._relation(table, origin_field, search_field, destination_field, id_...

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42.5

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def modify(self, dn: str, mod_list: dict) -> None: """ Modify a DN in the LDAP database; See ldap module. Doesn't return a result if transactions enabled. """ _debug("modify", self, dn, mod_list) # need to work out how to reverse changes in mod_list; result in revlist ...

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37.7875

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def grep(prev, pattern, *args, **kw): """The pipe greps the data passed from previous generator according to given regular expression. :param prev: The previous iterator of pipe. :type prev: Pipe :param pattern: The pattern which used to filter out data. :type pattern: str|unicode|re pattern ob...

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def sequence_quality_plot (self): """ Create the HTML for the phred quality score plot """ data = dict() for s_name in self.fastqc_data: try: data[s_name] = {self.avg_bp_from_range(d['base']): d['mean'] for d in self.fastqc_data[s_name]['per_base_sequence_quality']} ...

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def create_jail(name, arch, version="9.0-RELEASE"): ''' Creates a new poudriere jail if one does not exist *NOTE* creating a new jail will take some time the master is not hanging CLI Example: .. code-block:: bash salt '*' poudriere.create_jail 90amd64 amd64 ''' # Config file mus...

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26.266667

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def create_virtualenv(venv=VENV): """Creates the virtual environment and installs PIP only into the virtual environment """ print 'Creating venv...', run_command(['virtualenv', '-q', '--no-site-packages', VENV]) print 'done.' print 'Installing pip in virtualenv...', if not run_command([W...

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def tag(self, tagname, message=None, force=True): """Create an annotated tag.""" return git_tag(self.repo_dir, tagname, message=message, force=force)

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def insert_sequences_into_tree(aln, moltype, params={}, write_log=True): """Returns a tree from Alignment object aln. aln: an xxx.Alignment object, or data that can be used to build one. moltype: cogent.core.moltype.MolType object params: dict of parameters ...

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def filter(array, predicates, ty=None): """ Returns a new array, with each element in the original array satisfying the passed-in predicate set to `new_value` Args: array (WeldObject / Numpy.ndarray): Input array predicates (WeldObject / Numpy.ndarray<bool>): Predicate set ty (W...

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def from_dict(document): """Create data type definition form Json-like object represenation. Parameters ---------- document : dict Json-like object represenation Returns ------- AttributeType """ # Get the type name from the document ...

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def create_order(email, request, addresses=None, shipping_address=None, billing_address=None, shipping_option=None, capture_payment=False): """ Create an order from a basket and customer infomation """ ...

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def parse_URL(cls, url, timeout=None, resolve=True, required=False, unresolved_value=DEFAULT_SUBSTITUTION): """Parse URL :param url: url to parse :type url: basestring :param resolve: if true, resolve substitutions :type resolve: boolean :param unresolved_value: assigned...

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48.846154

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def dashboard(request): """Dashboard page""" user = None if request.user.is_authenticated(): user = User.objects.get(username=request.user) latest_results, count_types = get_collaboration_data(user) latest_results.sort(key=lambda elem: elem.modified, reverse=True) context = { ...

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28.866667

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