kejian/codesearchnet-python-linelen40-full

text stringlengths 89 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 630
def encode_fetch_request(cls, payloads=(), max_wait_time=100, min_bytes=4096): """ Encodes a FetchRequest struct Arguments: payloads: list of FetchRequestPayload max_wait_time (int, optional): ms to block waiting for min_bytes data. Defaults to 100. ...	[ "def", "encode_fetch_request", "(", "cls", ",", "payloads", "=", "(", ")", ",", "max_wait_time", "=", "100", ",", "min_bytes", "=", "4096", ")", ":", "return", "kafka", ".", "protocol", ".", "fetch", ".", "FetchRequest", "[", "0", "]", "(", "replica_id",...	37.64	17.32
def get_common_properties(root): """Read common properties from root of ReSpecTh XML file. Args: root (`~xml.etree.ElementTree.Element`): Root of ReSpecTh XML file Returns: properties (`dict`): Dictionary with common properties """ properties = {} for elem in root.iterfind('co...	[ "def", "get_common_properties", "(", "root", ")", ":", "properties", "=", "{", "}", "for", "elem", "in", "root", ".", "iterfind", "(", "'commonProperties/property'", ")", ":", "name", "=", "elem", ".", "attrib", "[", "'name'", "]", "if", "name", "==", "'...	44.308642	23.938272
def encode(request, data): """ Add request content data to request body, set Content-type header. Should be overridden by subclasses if not using JSON encoding. Args: request (HTTPRequest): The request object. data (dict, None): Data to be encoded. Returns: ...	[ "def", "encode", "(", "request", ",", "data", ")", ":", "if", "data", "is", "None", ":", "return", "request", "request", ".", "add_header", "(", "'Content-Type'", ",", "'application/json'", ")", "request", ".", "data", "=", "json", ".", "dumps", "(", "da...	28.157895	20.736842
def _update_weight(self, data, R, n_local_subj, local_weight_offset): """update local weight Parameters ---------- data : list of 2D array, element i has shape=[n_voxel, n_tr] Subjects' fMRI data. R : list of 2D arrays, element i has shape=[n_voxel, n_dim] ...	[ "def", "_update_weight", "(", "self", ",", "data", ",", "R", ",", "n_local_subj", ",", "local_weight_offset", ")", ":", "for", "s", ",", "subj_data", "in", "enumerate", "(", "data", ")", ":", "base", "=", "s", "*", "self", ".", "prior_size", "centers", ...	35.666667	19.377778
def get_patches_ignore_regex(self): """Returns a string representing a regex for filtering out patches This string is parsed from a comment in the specfile that contains the word filter-out followed by an equal sign. For example, a comment as such: # patches_ignore=(regex) ...	[ "def", "get_patches_ignore_regex", "(", "self", ")", ":", "match", "=", "re", ".", "search", "(", "r'# patches_ignore=([\\w .+?[\\]\|{,}\\-_]+)'", ",", "self", ".", "txt", ")", "if", "not", "match", ":", "return", "None", "regex_string", "=", "match", ".", "g...	34.043478	18.26087
def check_overlap(self, other): """Check overlap with another spectrum. Also see :ref:`pysynphot-command-checko`. This checks whether the wavelength set of the given spectrum is defined everywhere within ``self``. Wavelength values where throughput is zero are excluded from the ...	[ "def", "check_overlap", "(", "self", ",", "other", ")", ":", "if", "other", ".", "isAnalytic", "and", "not", "isinstance", "(", "other", ",", "Box", ")", ":", "# then it's defined everywhere, except for Box", "return", "'full'", "swave", "=", "self", ".", "wav...	28.029851	20.716418
def release(self): """Release a semaphore, incrementing the internal counter by one. When the counter is zero on entry and another thread is waiting for it to become larger than zero again, wake up that thread. If the number of releases exceeds the number of acquires, raise a V...	[ "def", "release", "(", "self", ")", ":", "with", "self", ".", "__cond", ":", "if", "self", ".", "__value", ">=", "self", ".", "_initial_value", ":", "raise", "ValueError", "(", "\"Semaphore released too many times\"", ")", "self", ".", "__value", "+=", "1", ...	36	20.933333
def parse_args(argv=None): """Parses CLI arguments. Args: argv: optional list of arguments to parse. sys.argv is used by default. Raises: dvc.exceptions.DvcParserError: raised for argument parsing errors. """ parent_parser = get_parent_parser() # Main parser desc = "Data V...	[ "def", "parse_args", "(", "argv", "=", "None", ")", ":", "parent_parser", "=", "get_parent_parser", "(", ")", "# Main parser", "desc", "=", "\"Data Version Control\"", "parser", "=", "DvcParser", "(", "prog", "=", "\"dvc\"", ",", "description", "=", "desc", ",...	24.195652	22.130435
def scalars_impl(self, run, tag_regex_string): """Given a tag regex and single run, return ScalarEvents. Args: run: A run string. tag_regex_string: A regular expression that captures portions of tags. Raises: ValueError: if the scalars plugin is not registered. Returns: A dict...	[ "def", "scalars_impl", "(", "self", ",", "run", ",", "tag_regex_string", ")", ":", "if", "not", "tag_regex_string", ":", "# The user provided no regex.", "return", "{", "_REGEX_VALID_PROPERTY", ":", "False", ",", "_TAG_TO_EVENTS_PROPERTY", ":", "{", "}", ",", "}",...	28.87931	21.017241
def sflow_collector_collector_port_number(self, **kwargs): """Auto Generated Code """ config = ET.Element("config") sflow = ET.SubElement(config, "sflow", xmlns="urn:brocade.com:mgmt:brocade-sflow") collector = ET.SubElement(sflow, "collector") collector_ip_address_key = ...	[ "def", "sflow_collector_collector_port_number", "(", "self", ",", "", "", "kwargs", ")", ":", "config", "=", "ET", ".", "Element", "(", "\"config\"", ")", "sflow", "=", "ET", ".", "SubElement", "(", "config", ",", "\"sflow\"", ",", "xmlns", "=", "\"urn:b...	52.133333	21.666667
def inject(fun: Callable) -> Callable: """ A decorator for injection dependencies into functions/methods, based on their type annotations. .. code-block:: python class SomeClass: @inject def __init__(self, my_dep: DepType) -> None: self.my_dep = my_dep ...	[ "def", "inject", "(", "fun", ":", "Callable", ")", "->", "Callable", ":", "sig", "=", "inspect", ".", "signature", "(", "fun", ")", "injectables", ":", "Dict", "[", "str", ",", "Any", "]", "=", "{", "}", "for", "name", ",", "param", "in", "sig", ...	27.439024	19.341463
def get_version() : "returns the libdbus library version as a tuple of integers (major, minor, micro)." major = ct.c_int() minor = ct.c_int() micro = ct.c_int() dbus.dbus_get_version(ct.byref(major), ct.byref(minor), ct.byref(micro)) return \ (major.value, minor.value, micro.value)	[ "def", "get_version", "(", ")", ":", "major", "=", "ct", ".", "c_int", "(", ")", "minor", "=", "ct", ".", "c_int", "(", ")", "micro", "=", "ct", ".", "c_int", "(", ")", "dbus", ".", "dbus_get_version", "(", "ct", ".", "byref", "(", "major", ")", ...	38.375	24.125
def write_ds9region(self, region, args, *kwargs): """Create a ds9 compatible region file from the ROI. It calls the `to_ds9` method and write the result to the region file. Only the file name is required. All other parameters will be forwarded to the `to_ds9` method, see the documentation of...	[ "def", "write_ds9region", "(", "self", ",", "region", ",", "", "args", ",", "", "", "kwargs", ")", ":", "lines", "=", "self", ".", "to_ds9", "(", "", "args", ",", "", "", "kwargs", ")", "with", "open", "(", "region", ",", "'w'", ")", "as", ...	40.2	20.8
def items(self): """ Returns an iterator over the named bitfields in the structure as 2-tuples of (key, value). Uses a clone so as to only read from the underlying data once. """ temp = self.clone() return [(f, getattr(temp, f)) for f in iter(self)]	[ "def", "items", "(", "self", ")", ":", "temp", "=", "self", ".", "clone", "(", ")", "return", "[", "(", "f", ",", "getattr", "(", "temp", ",", "f", ")", ")", "for", "f", "in", "iter", "(", "self", ")", "]" ]	34.111111	17.444444
def get_stack_data(self, frame, traceback, event_type): """Get the stack frames data at each of the hooks above (Ie. for each line of the Python code)""" heap_data = Heap(self.options) stack_data = StackFrames(self.options) stack_frames, cur_frame_ind = self.get_stack(frame, trac...	[ "def", "get_stack_data", "(", "self", ",", "frame", ",", "traceback", ",", "event_type", ")", ":", "heap_data", "=", "Heap", "(", "self", ".", "options", ")", "stack_data", "=", "StackFrames", "(", "self", ".", "options", ")", "stack_frames", ",", "cur_fra...	39.106383	18.212766
def pipe_commands_to_file(cmds, path, extra_env=None, show_stderr=False): """ Executes the list of commands piping each one into the next and writing stdout of the last process into a file at the given path. """ env = extend_env(extra_env) if extra_env else None env_str = (get_env_str(extra_env)...	[ "def", "pipe_commands_to_file", "(", "cmds", ",", "path", ",", "extra_env", "=", "None", ",", "show_stderr", "=", "False", ")", ":", "env", "=", "extend_env", "(", "extra_env", ")", "if", "extra_env", "else", "None", "env_str", "=", "(", "get_env_str", "("...	36.794118	19.5
def call(func, args, *kwargs): """ :return: a delegator function that returns a tuple (``func``, (seed tuple,)+ ``args``, ``kwargs``). That is, seed tuple is inserted before supplied positional arguments. By default, a thread wrapping ``func`` and all those arguments is spawned. ""...	[ "def", "call", "(", "func", ",", "", "args", ",", "", "*", "kwargs", ")", ":", "def", "f", "(", "seed_tuple", ")", ":", "return", "func", ",", "(", "seed_tuple", ",", ")", "+", "args", ",", "kwargs", "return", "f" ]	39.6	22.6
def maxnorm_regularizer(scale=1.0): """Max-norm regularization returns a function that can be used to apply max-norm regularization to weights. More about max-norm, see `wiki-max norm <https://en.wikipedia.org/wiki/Matrix_norm#Max_norm>`_. The implementation follows `TensorFlow contrib <https://github.com/...	[ "def", "maxnorm_regularizer", "(", "scale", "=", "1.0", ")", ":", "if", "isinstance", "(", "scale", ",", "numbers", ".", "Integral", ")", ":", "raise", "ValueError", "(", "'scale cannot be an integer: %s'", "%", "scale", ")", "if", "isinstance", "(", "scale", ...	41.136364	27.886364
def _get_merged(self, tax_id): """Returns tax_id into which `tax_id` has been merged or `tax_id` of not obsolete. """ cmd = """ SELECT COALESCE( (SELECT new_tax_id FROM {merged} WHERE old_tax_id = {x}), {x}) """.format(x=self.placeholder, merged=self.me...	[ "def", "_get_merged", "(", "self", ",", "tax_id", ")", ":", "cmd", "=", "\"\"\"\n SELECT COALESCE(\n (SELECT new_tax_id FROM {merged}\n WHERE old_tax_id = {x}), {x})\n \"\"\"", ".", "format", "(", "x", "=", "self", ".", "placeholder", ",", "merged...	30.066667	12.333333
def send_bcm(bcm_socket, data): """ Send raw frame to a BCM socket and handle errors. """ try: return bcm_socket.send(data) except OSError as e: base = "Couldn't send CAN BCM frame. OS Error {}: {}\n".format(e.errno, e.strerror) if e.errno == errno.EINVAL: raise ...	[ "def", "send_bcm", "(", "bcm_socket", ",", "data", ")", ":", "try", ":", "return", "bcm_socket", ".", "send", "(", "data", ")", "except", "OSError", "as", "e", ":", "base", "=", "\"Couldn't send CAN BCM frame. OS Error {}: {}\\n\"", ".", "format", "(", "e", ...	32.3	23.5
def _Dhcpcd(self, interfaces, logger): """Use dhcpcd to activate the interfaces. Args: interfaces: list of string, the output device names to enable. logger: logger object, used to write to SysLog and serial port. """ for interface in interfaces: dhcpcd = ['/sbin/dhcpcd'] try: ...	[ "def", "_Dhcpcd", "(", "self", ",", "interfaces", ",", "logger", ")", ":", "for", "interface", "in", "interfaces", ":", "dhcpcd", "=", "[", "'/sbin/dhcpcd'", "]", "try", ":", "subprocess", ".", "check_call", "(", "dhcpcd", "+", "[", "'-x'", ",", "interfa...	39.315789	16.578947
async def uint(self, elem, elem_type, params=None): """ Integer types :param elem: :param elem_type: :param params: :return: """ if self.writing: return IntegerModel(elem, elem_type.WIDTH) if self.modelize else elem else: re...	[ "async", "def", "uint", "(", "self", ",", "elem", ",", "elem_type", ",", "params", "=", "None", ")", ":", "if", "self", ".", "writing", ":", "return", "IntegerModel", "(", "elem", ",", "elem_type", ".", "WIDTH", ")", "if", "self", ".", "modelize", "e...	30	18
def save(self, full=False, force=False): ''' Saves the current entity to Redis. Will only save changed data by default, but you can force a full save by passing ``full=True``. If the underlying entity was deleted and you want to re-save the entity, you can pass ``force=True`` to...	[ "def", "save", "(", "self", ",", "full", "=", "False", ",", "force", "=", "False", ")", ":", "# handle the pre-commit hooks", "was_new", "=", "self", ".", "_new", "if", "was_new", ":", "self", ".", "_before_insert", "(", ")", "else", ":", "self", ".", ...	33.392857	19.607143
def return_features_base(dbpath, set_object, names): """ Generic function which returns a list of extracted features from the database Parameters ---------- dbpath : string, path to SQLite database file set_object : object (either TestSet or TrainSet) which is stored in the database names :...	[ "def", "return_features_base", "(", "dbpath", ",", "set_object", ",", "names", ")", ":", "engine", "=", "create_engine", "(", "'sqlite:////'", "+", "dbpath", ")", "session_cl", "=", "sessionmaker", "(", "bind", "=", "engine", ")", "session", "=", "session_cl",...	38.764706	20.470588
def DoRarExtraction(rarArchive, targetFile, dstDir): """ RAR extraction with exception catching Parameters ---------- rarArchive : RarFile object RarFile object to extract. targetFile : string Target file name. dstDir : string Target directory. Returns ---------- boolea...	[ "def", "DoRarExtraction", "(", "rarArchive", ",", "targetFile", ",", "dstDir", ")", ":", "try", ":", "rarArchive", ".", "extract", "(", "targetFile", ",", "dstDir", ")", "except", "BaseException", "as", "ex", ":", "goodlogging", ".", "Log", ".", "Info", "(...	20.666667	21.777778
def is_element_visible(driver, selector, by=By.CSS_SELECTOR): """ Returns whether the specified element selector is visible on the page. @Params driver - the webdriver object (required) selector - the locator that is used (required) by - the method to search for the locator (Default: By.CSS_SELE...	[ "def", "is_element_visible", "(", "driver", ",", "selector", ",", "by", "=", "By", ".", "CSS_SELECTOR", ")", ":", "try", ":", "element", "=", "driver", ".", "find_element", "(", "by", "=", "by", ",", "value", "=", "selector", ")", "return", "element", ...	34.4	17.333333
def numericalparameters(self): """Numeric parameter declaration lines.""" lines = Lines() if self.model.NUMERICAL: lines.add(0, '@cython.final') lines.add(0, 'cdef class NumConsts(object):') for name in ('nmb_methods', 'nmb_stages'): lines.add(...	[ "def", "numericalparameters", "(", "self", ")", ":", "lines", "=", "Lines", "(", ")", "if", "self", ".", "model", ".", "NUMERICAL", ":", "lines", ".", "add", "(", "0", ",", "'@cython.final'", ")", "lines", ".", "add", "(", "0", ",", "'cdef class NumCon...	54.65	19.65
def remove_prefix(self, id): """ Remove a prefix from pool 'id'. """ if 'prefix' not in request.params: abort(400, 'Missing prefix.') prefix = Prefix.get(int(request.params['prefix'])) prefix.pool = None prefix.save() redirect(url(controller = 'pool'...	[ "def", "remove_prefix", "(", "self", ",", "id", ")", ":", "if", "'prefix'", "not", "in", "request", ".", "params", ":", "abort", "(", "400", ",", "'Missing prefix.'", ")", "prefix", "=", "Prefix", ".", "get", "(", "int", "(", "request", ".", "params", ...	30.727273	15.818182
def InitUser(): """Initialize application user. Retrieve existing user credentials from datastore or add new user. Returns: AppUser instance of the application user. """ result = AppUser.query(AppUser.user == users.get_current_user()).fetch() if result: app_user = result[0] else: app_user =...	[ "def", "InitUser", "(", ")", ":", "result", "=", "AppUser", ".", "query", "(", "AppUser", ".", "user", "==", "users", ".", "get_current_user", "(", ")", ")", ".", "fetch", "(", ")", "if", "result", ":", "app_user", "=", "result", "[", "0", "]", "el...	24.611111	24.388889
def create_card(self, base_info, payee, invoice_type, detail=None): """ 创建发票卡券模板注意这里的对象和会员卡有类似之处，但是含义有不同。创建发票卡券模板是创建发票卡券的基础。详情请参考 https://mp.weixin.qq.com/wiki?id=mp1496561481_1TyO7 :param base_info:发票卡券模板基础信息 :type base_info: dict :param payee: 收款方（开票方...	[ "def", "create_card", "(", "self", ",", "base_info", ",", "payee", ",", "invoice_type", ",", "detail", "=", "None", ")", ":", "return", "self", ".", "_post", "(", "'platform/createcard'", ",", "data", "=", "{", "'invoice_info'", ":", "{", "'base_info'", ":...	31.923077	14.230769
def applymap(self, func, subset=None, **kwargs): """ Apply a function elementwise, updating the HTML representation with the result. Parameters ---------- func : function ``func`` should take a scalar and return a scalar subset : IndexSlice ...	[ "def", "applymap", "(", "self", ",", "func", ",", "subset", "=", "None", ",", "", "", "kwargs", ")", ":", "self", ".", "_todo", ".", "append", "(", "(", "lambda", "instance", ":", "getattr", "(", "instance", ",", "'_applymap'", ")", ",", "(", "fu...	28.461538	19.769231
def _step2func(self, samples, force, ipyclient): """ hidden wrapped function to start step 2""" ## print header if self._headers: print("\n Step 2: Filtering reads ") ## If no samples in this assembly then it means you skipped step1, if not self.samples.keys(): ...	[ "def", "_step2func", "(", "self", ",", "samples", ",", "force", ",", "ipyclient", ")", ":", "## print header", "if", "self", ".", "_headers", ":", "print", "(", "\"\\n Step 2: Filtering reads \"", ")", "## If no samples in this assembly then it means you skipped step1,",...	35.136364	19.590909
def execute(self, lf_raw: str) -> int: """ Very basic model for executing friction logical forms. For now returns answer index (or -1 if no answer can be concluded) """ # Remove "a:" prefixes from attributes (hack) logical_form = re.sub(r"\(a:", r"(", lf_raw) pars...	[ "def", "execute", "(", "self", ",", "lf_raw", ":", "str", ")", "->", "int", ":", "# Remove \"a:\" prefixes from attributes (hack)", "logical_form", "=", "re", ".", "sub", "(", "r\"\\(a:\"", ",", "r\"(\"", ",", "lf_raw", ")", "parse", "=", "semparse_util", ".",...	38.8125	14.1875
def line_to(self, x, y): """Adds a line to the path from the current point to position ``(x, y)`` in user-space coordinates. After this call the current point will be ``(x, y)``. If there is no current point before the call to :meth:`line_to` this method will behave as ``context...	[ "def", "line_to", "(", "self", ",", "x", ",", "y", ")", ":", "cairo", ".", "cairo_line_to", "(", "self", ".", "_pointer", ",", "x", ",", "y", ")", "self", ".", "_check_status", "(", ")" ]	36.125	19.875
def transform(function): """Return a processor for a style's "transform" function. """ def transform_fn(_, result): if isinstance(result, Nothing): return result lgr.debug("Transforming %r with %r", result, function) try: retur...	[ "def", "transform", "(", "function", ")", ":", "def", "transform_fn", "(", "_", ",", "result", ")", ":", "if", "isinstance", "(", "result", ",", "Nothing", ")", ":", "return", "result", "lgr", ".", "debug", "(", "\"Transforming %r with %r\"", ",", "result"...	40	15.826087
def get_formset_class(self, form, name): """ Either return the formset class that was provided as argument to the __init__ method, or build one based on the ``parent_model`` and ``model`` attributes. """ if self.formset_class is not None: return self.formset_c...	[ "def", "get_formset_class", "(", "self", ",", "form", ",", "name", ")", ":", "if", "self", ".", "formset_class", "is", "not", "None", ":", "return", "self", ".", "formset_class", "formset_class", "=", "inlineformset_factory", "(", "self", ".", "get_parent_mode...	39.846154	8.461538
def save_form(self, commit=True): """ This calls Django's ``ModelForm.save()``. It only takes care of saving this actual form, and leaves the nested forms and formsets alone. We separate this out of the :meth:`~django_superform.forms.SuperModelForm.save` method to make ...	[ "def", "save_form", "(", "self", ",", "commit", "=", "True", ")", ":", "return", "super", "(", "SuperModelFormMixin", ",", "self", ")", ".", "save", "(", "commit", "=", "commit", ")" ]	38	19.454545
def get_visible_commands(self) -> List[str]: """Returns a list of commands that have not been hidden or disabled.""" commands = self.get_all_commands() # Remove the hidden commands for name in self.hidden_commands: if name in commands: commands.remove(name) ...	[ "def", "get_visible_commands", "(", "self", ")", "->", "List", "[", "str", "]", ":", "commands", "=", "self", ".", "get_all_commands", "(", ")", "# Remove the hidden commands", "for", "name", "in", "self", ".", "hidden_commands", ":", "if", "name", "in", "co...	32.266667	11.666667
def _check_param_limits(self, q, chiA, chiB, allow_extrap): """ Checks that params are within allowed range of paramters. Raises a warning if outside self.soft_param_lims limits and raises an error if outside self.hard_param_lims. If allow_extrap=True, skips these checks. """ ...	[ "def", "_check_param_limits", "(", "self", ",", "q", ",", "chiA", ",", "chiB", ",", "allow_extrap", ")", ":", "if", "q", "<", "1", ":", "raise", "ValueError", "(", "'Mass ratio should be >= 1.'", ")", "chiAmag", "=", "np", ".", "sqrt", "(", "np", ".", ...	43.731707	21.536585
def enable(self, snmp_agent, snmp_location=None, snmp_interface=None): """ Enable SNMP on the engine. Specify a list of interfaces by ID to enable only on those interfaces. Only interfaces that have NDI's are supported. :param str,Element snmp_agent: the SNMP agent refer...	[ "def", "enable", "(", "self", ",", "snmp_agent", ",", "snmp_location", "=", "None", ",", "snmp_interface", "=", "None", ")", ":", "agent", "=", "element_resolver", "(", "snmp_agent", ")", "snmp_interface", "=", "[", "]", "if", "not", "snmp_interface", "else"...	48.15	19.75
def split_data_cwl_items(items, default_keys=None): """Split a set of CWL output dictionaries into data samples and CWL items. Handles cases where we're arrayed on multiple things, like a set of regional VCF calls and data objects. """ key_lens = set([]) for data in items: key_lens.add(...	[ "def", "split_data_cwl_items", "(", "items", ",", "default_keys", "=", "None", ")", ":", "key_lens", "=", "set", "(", "[", "]", ")", "for", "data", "in", "items", ":", "key_lens", ".", "add", "(", "len", "(", "_get_all_cwlkeys", "(", "[", "data", "]", ...	36.941176	15.852941
def deletegroup(self, group_id): """ Deletes an group by ID :param group_id: id of the group to delete :return: True if it deleted, False if it couldn't. False could happen for several reasons, but there isn't a good way of differentiating them """ request = requests.del...	[ "def", "deletegroup", "(", "self", ",", "group_id", ")", ":", "request", "=", "requests", ".", "delete", "(", "'{0}/{1}'", ".", "format", "(", "self", ".", "groups_url", ",", "group_id", ")", ",", "headers", "=", "self", ".", "headers", ",", "verify", ...	42.416667	24.583333
def _create_color_buttons(self): """Create color choice buttons""" button_size = (30, 30) button_style = wx.NO_BORDER try: self.linecolor_choice = \ csel.ColourSelect(self, -1, unichr(0x2500), (0, 0, 0), size=button_size, st...	[ "def", "_create_color_buttons", "(", "self", ")", ":", "button_size", "=", "(", "30", ",", "30", ")", "button_style", "=", "wx", ".", "NO_BORDER", "try", ":", "self", ".", "linecolor_choice", "=", "csel", ".", "ColourSelect", "(", "self", ",", "-", "1", ...	42.294118	21.205882
def requestedFormat(request,acceptedFormat): """Return the response format requested by client Client could specify requested format using: (options are processed in this order) - `format` field in http request - `Accept` header in http request Example: ...	[ "def", "requestedFormat", "(", "request", ",", "acceptedFormat", ")", ":", "if", "'format'", "in", "request", ".", "args", ":", "fieldFormat", "=", "request", ".", "args", ".", "get", "(", "'format'", ")", "if", "fieldFormat", "not", "in", "acceptedFormat", ...	41.347826	17.608696
def get_assessment_offered_mdata(): """Return default mdata map for AssessmentOffered""" return { 'level': { 'element_label': { 'text': 'level', 'languageTypeId': str(DEFAULT_LANGUAGE_TYPE), 'scriptTypeId': str(DEFAULT_SCRIPT_TYPE), ...	[ "def", "get_assessment_offered_mdata", "(", ")", ":", "return", "{", "'level'", ":", "{", "'element_label'", ":", "{", "'text'", ":", "'level'", ",", "'languageTypeId'", ":", "str", "(", "DEFAULT_LANGUAGE_TYPE", ")", ",", "'scriptTypeId'", ":", "str", "(", "DE...	37.031414	15.230366
def accel_move_tab_left(self, *args): # TODO KEYBINDINGS ONLY """ Callback to move a tab to the left """ pos = self.get_notebook().get_current_page() if pos != 0: self.move_tab(pos, pos - 1) return True	[ "def", "accel_move_tab_left", "(", "self", ",", "*", "args", ")", ":", "# TODO KEYBINDINGS ONLY", "pos", "=", "self", ".", "get_notebook", "(", ")", ".", "get_current_page", "(", ")", "if", "pos", "!=", "0", ":", "self", ".", "move_tab", "(", "pos", ",",...	35.428571	9.428571
def satellites_configuration(self): """Return all the configuration data of satellites :return: dict containing satellites data Output looks like this :: {'arbiter' : [{'property1':'value1' ..}, {'property2', 'value11' ..}, ..], 'scheduler': [..], 'poller': [..], ...	[ "def", "satellites_configuration", "(", "self", ")", ":", "res", "=", "{", "}", "for", "s_type", "in", "[", "'arbiter'", ",", "'scheduler'", ",", "'poller'", ",", "'reactionner'", ",", "'receiver'", ",", "'broker'", "]", ":", "lst", "=", "[", "]", "res",...	37.119048	17.952381
def erase_characters(self, count=None): """Erase the indicated # of characters, starting with the character at cursor position. Character attributes are set cursor attributes. The cursor remains in the same position. :param int count: number of characters to erase. .. note:: ...	[ "def", "erase_characters", "(", "self", ",", "count", "=", "None", ")", ":", "self", ".", "dirty", ".", "add", "(", "self", ".", "cursor", ".", "y", ")", "count", "=", "count", "or", "1", "line", "=", "self", ".", "buffer", "[", "self", ".", "cur...	39.809524	19.52381
def put_events(environment, start_response, headers): """ Store events in backends POST body should contain a JSON encoded version of: { namespace: namespace_name (optional), events: { stream_name1 : [event1, event2, ...], stream_name2 : [event1, event2, ...], ... } }...	[ "def", "put_events", "(", "environment", ",", "start_response", ",", "headers", ")", ":", "errors", "=", "[", "]", "events_to_insert", "=", "defaultdict", "(", "list", ")", "request_json", "=", "environment", "[", "'json'", "]", "namespace", "=", "request_json...	33.016393	20.196721
def get_collection(self, name): '''get a collection, if it exists, otherwise return None. ''' from sregistry.database.models import Collection return Collection.query.filter(Collection.name == name).first()	[ "def", "get_collection", "(", "self", ",", "name", ")", ":", "from", "sregistry", ".", "database", ".", "models", "import", "Collection", "return", "Collection", ".", "query", ".", "filter", "(", "Collection", ".", "name", "==", "name", ")", ".", "first", ...	43.6	20.4
def reset(self): """Reset itself and recursively all its children.""" watchers.MATCHER.debug("Node <%s> reset", self) self._reset() for child in self.children: child.node.reset()	[ "def", "reset", "(", "self", ")", ":", "watchers", ".", "MATCHER", ".", "debug", "(", "\"Node <%s> reset\"", ",", "self", ")", "self", ".", "_reset", "(", ")", "for", "child", "in", "self", ".", "children", ":", "child", ".", "node", ".", "reset", "(...	36.166667	12.166667
def _read_message(self): """ Reads a message from the socket and converts it to a message. """ # first 4 bytes is Big-Endian payload length payload_info = self._read_bytes_from_socket(4) read_len = unpack(">I", payload_info)[0] # now read the payload payload = self._read...	[ "def", "_read_message", "(", "self", ")", ":", "# first 4 bytes is Big-Endian payload length", "payload_info", "=", "self", ".", "_read_bytes_from_socket", "(", "4", ")", "read_len", "=", "unpack", "(", "\">I\"", ",", "payload_info", ")", "[", "0", "]", "# now rea...	34.714286	16.214286
def create(obj: PersistedObject, obj_type: Type[Any], arg_name: str): """ Helper method provided because we actually can't put that in the constructor, it creates a bug in Nose tests https://github.com/nose-devs/nose/issues/725 :param obj: :param obj_type: :param arg_nam...	[ "def", "create", "(", "obj", ":", "PersistedObject", ",", "obj_type", ":", "Type", "[", "Any", "]", ",", "arg_name", ":", "str", ")", ":", "return", "MissingMandatoryAttributeFiles", "(", "'Multifile object '", "+", "str", "(", "obj", ")", "+", "' cannot be ...	48.266667	33.066667
def _zforce(self,R,z,phi=0.,t=0.): """ NAME: zforce PURPOSE: evaluate vertical force K_z (R,z) INPUT: R - Cylindrical Galactocentric radius z - vertical height phi - azimuth t - time OUTPUT: K_z (R,z) ...	[ "def", "_zforce", "(", "self", ",", "R", ",", "z", ",", "phi", "=", "0.", ",", "t", "=", "0.", ")", ":", "if", "True", ":", "if", "isinstance", "(", "R", ",", "nu", ".", "ndarray", ")", ":", "if", "not", "isinstance", "(", "z", ",", "nu", "...	42.676471	24.794118
def read(input_taxonomy_io): '''Parse in a taxonomy from the given I/O. Parameters ---------- input_taxonomy_io: io an open io object that is iterable. This stream is neither opened nor closed by this method Returns ------- A GreenGenesTa...	[ "def", "read", "(", "input_taxonomy_io", ")", ":", "tax", "=", "{", "}", "for", "line", "in", "input_taxonomy_io", ":", "if", "len", "(", "line", ".", "strip", "(", ")", ")", "==", "0", ":", "continue", "#ignore empty lines", "splits", "=", "line", "."...	42.457143	25.714286
def gc(ctx): """Runs housekeeping tasks to free up space. For now, this only removes saved but unused (unreachable) test results. """ vcs = ctx.obj['vcs'] count = 0 with locking.lock(vcs, locking.Lock.tests_history): known_signatures = set(get_committed_signatures(vcs) + get_staged_sign...	[ "def", "gc", "(", "ctx", ")", ":", "vcs", "=", "ctx", ".", "obj", "[", "'vcs'", "]", "count", "=", "0", "with", "locking", ".", "lock", "(", "vcs", ",", "locking", ".", "Lock", ".", "tests_history", ")", ":", "known_signatures", "=", "set", "(", ...	40	19.642857
def get_provider(self, name): """Allows for lazy instantiation of providers (Jinja2 templating is heavy, so only instantiate it if necessary).""" if name not in self.providers: cls = self.provider_classes[name] # instantiate the provider self.providers[name] =...	[ "def", "get_provider", "(", "self", ",", "name", ")", ":", "if", "name", "not", "in", "self", ".", "providers", ":", "cls", "=", "self", ".", "provider_classes", "[", "name", "]", "# instantiate the provider", "self", ".", "providers", "[", "name", "]", ...	44.875	3.625
def cuts_from_bbox(mask_nii, cuts=3): """Finds equi-spaced cuts for presenting images""" from nibabel.affines import apply_affine mask_data = mask_nii.get_data() > 0.0 # First, project the number of masked voxels on each axes ijk_counts = [ mask_data.sum(2).sum(1), # project sagittal plan...	[ "def", "cuts_from_bbox", "(", "mask_nii", ",", "cuts", "=", "3", ")", ":", "from", "nibabel", ".", "affines", "import", "apply_affine", "mask_data", "=", "mask_nii", ".", "get_data", "(", ")", ">", "0.0", "# First, project the number of masked voxels on each axes", ...	44.530612	23.877551
def update_gol(self): """ Function that performs one step of the Game of Life """ updated_grid = [[self.update_cell(row, col) \ for col in range(self.get_grid_width())] \ for row in range(self.get_grid_height())] ...	[ "def", "update_gol", "(", "self", ")", ":", "updated_grid", "=", "[", "[", "self", ".", "update_cell", "(", "row", ",", "col", ")", "for", "col", "in", "range", "(", "self", ".", "get_grid_width", "(", ")", ")", "]", "for", "row", "in", "range", "(...	34.9	17.5
def debug(s, *args): """debug(s, x1, ..., xn) logs s.format(x1, ..., xn).""" # Get the path name and line number of the function which called us. previous_frame = inspect.currentframe().f_back try: pathname, lineno, _, _, _ = inspect.getframeinfo(previous_frame) # if path is in cwd, simp...	[ "def", "debug", "(", "s", ",", "*", "args", ")", ":", "# Get the path name and line number of the function which called us.", "previous_frame", "=", "inspect", ".", "currentframe", "(", ")", ".", "f_back", "try", ":", "pathname", ",", "lineno", ",", "_", ",", "_...	43.684211	12.263158
def U(Document, __raw__=None, **update): """Generate a MongoDB update document through paramater interpolation. Arguments passed by name have their name interpreted as an optional operation prefix (defaulting to `set`, e.g. `push`), a double-underscore separated field reference (e.g. `foo`, or `foo__bar`, or `foo_...	[ "def", "U", "(", "Document", ",", "__raw__", "=", "None", ",", "", "", "update", ")", ":", "ops", "=", "Update", "(", "__raw__", ")", "args", "=", "_process_arguments", "(", "Document", ",", "UPDATE_ALIASES", ",", "{", "}", ",", "update", ",", "UPD...	31.235294	26.558824
def shutdown(self): """Shutdown ZAP.""" if not self.is_running(): self.logger.warn('ZAP is not running.') return self.logger.debug('Shutting down ZAP.') self.zap.core.shutdown() timeout_time = time.time() + self.timeout while self.is_running(): ...	[ "def", "shutdown", "(", "self", ")", ":", "if", "not", "self", ".", "is_running", "(", ")", ":", "self", ".", "logger", ".", "warn", "(", "'ZAP is not running.'", ")", "return", "self", ".", "logger", ".", "debug", "(", "'Shutting down ZAP.'", ")", "self...	31.375	17.3125
def feed_fetch_force(request, id, redirect_to): """Forcibly fetch tweets for the feed""" feed = Feed.objects.get(id=id) feed.fetch(force=True) msg = _("Fetched tweets for %s" % feed.name) messages.success(request, msg, fail_silently=True) return HttpResponseRedirect(redirect_to)	[ "def", "feed_fetch_force", "(", "request", ",", "id", ",", "redirect_to", ")", ":", "feed", "=", "Feed", ".", "objects", ".", "get", "(", "id", "=", "id", ")", "feed", ".", "fetch", "(", "force", "=", "True", ")", "msg", "=", "_", "(", "\"Fetched t...	42.428571	7.571429
def set_max_beds(self, max_beds): """ The maximum number of beds. :param max_beds: :return: """ if not isinstance(max_beds, int): raise DaftException("Maximum number of beds should be an integer.") self._max_beds = str(max_beds) self._query_pa...	[ "def", "set_max_beds", "(", "self", ",", "max_beds", ")", ":", "if", "not", "isinstance", "(", "max_beds", ",", "int", ")", ":", "raise", "DaftException", "(", "\"Maximum number of beds should be an integer.\"", ")", "self", ".", "_max_beds", "=", "str", "(", ...	32.636364	15
def results(self): """ Returns a list of tuple, ordered by similarity. """ d = dict() words = [word.strip() for word in self.haystack] if not words: raise NoResultException('No similar word found.') for w in words: d[w] = Levenshtein.rati...	[ "def", "results", "(", "self", ")", ":", "d", "=", "dict", "(", ")", "words", "=", "[", "word", ".", "strip", "(", ")", "for", "word", "in", "self", ".", "haystack", "]", "if", "not", "words", ":", "raise", "NoResultException", "(", "'No similar word...	28.571429	21.285714
def render_headers(self): """ Renders the headers for this request field. """ lines = [] sort_keys = ['Content-Disposition', 'Content-Type', 'Content-Location'] for sort_key in sort_keys: if self.headers.get(sort_key, False): lines.append('%s:...	[ "def", "render_headers", "(", "self", ")", ":", "lines", "=", "[", "]", "sort_keys", "=", "[", "'Content-Disposition'", ",", "'Content-Type'", ",", "'Content-Location'", "]", "for", "sort_key", "in", "sort_keys", ":", "if", "self", ".", "headers", ".", "get"...	34.666667	19
def to_grayscale(img): """Convert PIL image to numpy grayscale array and numpy alpha array. Args: img (PIL.Image): PIL Image object. Returns: (gray, alpha): both numpy arrays. """ gray = numpy.asarray(ImageOps.grayscale(img)).astype(numpy.float) imbands = img.getbands() alpha ...	[ "def", "to_grayscale", "(", "img", ")", ":", "gray", "=", "numpy", ".", "asarray", "(", "ImageOps", ".", "grayscale", "(", "img", ")", ")", ".", "astype", "(", "numpy", ".", "float", ")", "imbands", "=", "img", ".", "getbands", "(", ")", "alpha", "...	24.941176	21.470588
def to_structure(matrix, alpha=1): """Compute best matching 3D genome structure from underlying input matrix using ShRec3D-derived method from Lesne et al., 2014. Link: https://www.ncbi.nlm.nih.gov/pubmed/25240436 The method performs two steps: first compute distance matrix by treating contact dat...	[ "def", "to_structure", "(", "matrix", ",", "alpha", "=", "1", ")", ":", "connected", "=", "largest_connected_component", "(", "matrix", ")", "distances", "=", "to_distance", "(", "connected", ",", "alpha", ")", "n", ",", "m", "=", "connected", ".", "shape"...	42.6	21.55
def format_config_for_graphql(config): '''This recursive descent thing formats a config dict for GraphQL.''' def _format_config_subdict(config, current_indent=0): check.dict_param(config, 'config', key_type=str) printer = IndentingStringIoPrinter(indent_level=2, current_indent=current_indent) ...	[ "def", "format_config_for_graphql", "(", "config", ")", ":", "def", "_format_config_subdict", "(", "config", ",", "current_indent", "=", "0", ")", ":", "check", ".", "dict_param", "(", "config", ",", "'config'", ",", "key_type", "=", "str", ")", "printer", "...	37.80597	21.41791
def plot_reliability_diagram(confidence, labels, filepath): """ Takes in confidence values for predictions and correct labels for the data, plots a reliability diagram. :param confidence: nb_samples x nb_classes (e.g., output of softmax) :param labels: vector of nb_samples :param filepath: where to save the...	[ "def", "plot_reliability_diagram", "(", "confidence", ",", "labels", ",", "filepath", ")", ":", "assert", "len", "(", "confidence", ".", "shape", ")", "==", "2", "assert", "len", "(", "labels", ".", "shape", ")", "==", "1", "assert", "confidence", ".", "...	35.205882	15.882353
def _WritePathInfo(self, client_id, path_info): """Writes a single path info record for given client.""" if client_id not in self.metadatas: raise db.UnknownClientError(client_id) path_record = self._GetPathRecord(client_id, path_info) path_record.AddPathInfo(path_info) parent_path_info = pa...	[ "def", "_WritePathInfo", "(", "self", ",", "client_id", ",", "path_info", ")", ":", "if", "client_id", "not", "in", "self", ".", "metadatas", ":", "raise", "db", ".", "UnknownClientError", "(", "client_id", ")", "path_record", "=", "self", ".", "_GetPathReco...	40.5	13.333333
def methodReturnReceived(self, mret): """ Called when a method return message is received """ d, timeout = self._pendingCalls.get(mret.reply_serial, (None, None)) if timeout: timeout.cancel() if d: del self._pendingCalls[mret.reply_serial] ...	[ "def", "methodReturnReceived", "(", "self", ",", "mret", ")", ":", "d", ",", "timeout", "=", "self", ".", "_pendingCalls", ".", "get", "(", "mret", ".", "reply_serial", ",", "(", "None", ",", "None", ")", ")", "if", "timeout", ":", "timeout", ".", "c...	33.1	13.9
def _extract_columns(self, table_name): ''' a method to extract the column properties of an existing table ''' import re from sqlalchemy import MetaData, VARCHAR, INTEGER, BLOB, BOOLEAN, FLOAT from sqlalchemy.dialects.postgresql import DOUBLE_PRECISION, BIT, BYTEA ...	[ "def", "_extract_columns", "(", "self", ",", "table_name", ")", ":", "import", "re", "from", "sqlalchemy", "import", "MetaData", ",", "VARCHAR", ",", "INTEGER", ",", "BLOB", ",", "BOOLEAN", ",", "FLOAT", "from", "sqlalchemy", ".", "dialects", ".", "postgresq...	45.268293	18.146341
def verify_response_duration(self, expected=None, zero=0, threshold_percent=0, break_in_fail=True): """ Verify that response duration is in bounds. :param expected: seconds what is expected duration :param zero: seconds if one to normalize duration befor...	[ "def", "verify_response_duration", "(", "self", ",", "expected", "=", "None", ",", "zero", "=", "0", ",", "threshold_percent", "=", "0", ",", "break_in_fail", "=", "True", ")", ":", "was", "=", "self", ".", "timedelta", "-", "zero", "error", "=", "abs", ...	48.272727	18
def isValue(self): """Indicate that \|ASN.1\| object represents ASN.1 value. If isValue is `False` then this object represents just ASN.1 schema. If isValue is `True` then, in addition to its ASN.1 schema features, this object can also be used like a Python built-in object (e.g. `int...	[ "def", "isValue", "(", "self", ")", ":", "for", "componentValue", "in", "self", ".", "_componentValues", ":", "if", "componentValue", "is", "noValue", "or", "not", "componentValue", ".", "isValue", ":", "return", "False", "return", "True" ]	41.580645	29.516129
def download(supported_tags, date_array, tag, sat_id, ftp_site='cdaweb.gsfc.nasa.gov', data_path=None, user=None, password=None, fake_daily_files_from_monthly=False): """Routine to download NASA CDAWeb CDF data. This routine is intended to be used by pysat instrumen...	[ "def", "download", "(", "supported_tags", ",", "date_array", ",", "tag", ",", "sat_id", ",", "ftp_site", "=", "'cdaweb.gsfc.nasa.gov'", ",", "data_path", "=", "None", ",", "user", "=", "None", ",", "password", "=", "None", ",", "fake_daily_files_from_monthly", ...	37.330097	21.009709
def group_by(self, key_selector=identity, element_selector=identity, result_selector=lambda key, grouping: grouping): '''Groups the elements according to the value of a key extracted by a selector function. Note: This method has different behaviour to itertools...	[ "def", "group_by", "(", "self", ",", "key_selector", "=", "identity", ",", "element_selector", "=", "identity", ",", "result_selector", "=", "lambda", "key", ",", "grouping", ":", "grouping", ")", ":", "if", "self", ".", "closed", "(", ")", ":", "raise", ...	46.5	27.224138
def get_vboxes(self): """ Get the maximum ID of the VBoxes :return: Maximum VBox ID :rtype: int """ vbox_list = [] vbox_max = None for node in self.nodes: if node['type'] == 'VirtualBoxVM': vbox_list.append(node['vbox_id']) ...	[ "def", "get_vboxes", "(", "self", ")", ":", "vbox_list", "=", "[", "]", "vbox_max", "=", "None", "for", "node", "in", "self", ".", "nodes", ":", "if", "node", "[", "'type'", "]", "==", "'VirtualBoxVM'", ":", "vbox_list", ".", "append", "(", "node", "...	24.6875	13.5625
def __write_list_tmpl(html_tpl): ''' doing for directory. ''' out_dir = os.path.join(os.getcwd(), CRUD_PATH, 'infolist') if os.path.exists(out_dir): pass else: os.mkdir(out_dir) # for var_name in VAR_NAMES: for var_name, bl_val in SWITCH_DICS.items(): if var_name....	[ "def", "__write_list_tmpl", "(", "html_tpl", ")", ":", "out_dir", "=", "os", ".", "path", ".", "join", "(", "os", ".", "getcwd", "(", ")", ",", "CRUD_PATH", ",", "'infolist'", ")", "if", "os", ".", "path", ".", "exists", "(", "out_dir", ")", ":", "...	37.681818	16.545455
def get_ipv6_neighbors_table(self): """ Get IPv6 neighbors table information. Return a list of dictionaries having the following set of keys: * interface (string) * mac (string) * ip (string) * age (float) in seconds * state (string) ...	[ "def", "get_ipv6_neighbors_table", "(", "self", ")", ":", "ipv6_neighbors_table", "=", "[", "]", "command", "=", "\"show ipv6 neighbors\"", "output", "=", "self", ".", "_send_command", "(", "command", ")", "ipv6_neighbors", "=", "\"\"", "fields", "=", "re", ".",...	36.480769	14.519231
def add_fields(store_name, field_names): """ A class-decorator that creates layout managers with a set of named fields. """ def decorate(cls): def _add(index, name): def _set_dir(self, value): getattr(self, store_name)[index] = value def _get_dir(self): return getattr...	[ "def", "add_fields", "(", "store_name", ",", "field_names", ")", ":", "def", "decorate", "(", "cls", ")", ":", "def", "_add", "(", "index", ",", "name", ")", ":", "def", "_set_dir", "(", "self", ",", "value", ")", ":", "getattr", "(", "self", ",", ...	30.882353	21.235294
def _message(self, beacon_config, invert_hello=False): """ Overridden :meth:`.WBeaconGouverneurMessenger._message` method. Appends encoded host group names to requests and responses. :param beacon_config: beacon configuration :return: bytes """ m = WBeaconGouverneurMessenger._message(self, beacon_config, i...	[ "def", "_message", "(", "self", ",", "beacon_config", ",", "invert_hello", "=", "False", ")", ":", "m", "=", "WBeaconGouverneurMessenger", ".", "_message", "(", "self", ",", "beacon_config", ",", "invert_hello", "=", "invert_hello", ")", "hostgroups", "=", "se...	41.5	19.416667
def remove(self, projectname=None, complete=False, yes=False, all_projects=False, **kwargs): """ Delete an existing experiment and/or projectname Parameters ---------- projectname: str The name for which the data shall be removed. If True, the ...	[ "def", "remove", "(", "self", ",", "projectname", "=", "None", ",", "complete", "=", "False", ",", "yes", "=", "False", ",", "all_projects", "=", "False", ",", "", "", "kwargs", ")", ":", "self", ".", "app_main", "(", "", "", "kwargs", ")", "if...	40.710145	17.231884
def get_dev_alarms(auth, url, devid=None, devip=None): """ function takes the devId of a specific device and issues a RESTFUL call to get the current alarms for the target device. :param devid: int or str value of the target device :param devip: str of ipv4 address of the target device :param...	[ "def", "get_dev_alarms", "(", "auth", ",", "url", ",", "devid", "=", "None", ",", "devip", "=", "None", ")", ":", "# checks to see if the imc credentials are already available", "if", "devip", "is", "not", "None", ":", "devid", "=", "get_dev_details", "(", "devi...	35.976744	25
def setRandomParams(self): """ set random hyperparameters """ params = SP.randn(self.getNumberParams()) self.setParams(params)	[ "def", "setRandomParams", "(", "self", ")", ":", "params", "=", "SP", ".", "randn", "(", "self", ".", "getNumberParams", "(", ")", ")", "self", ".", "setParams", "(", "params", ")" ]	26.833333	6.5
def poll(self, command="start", *, delay=120): """ Poll a point every x seconds (delay=x sec) Can be stopped by using point.poll('stop') or .poll(0) or .poll(False) or by setting a delay = 0 :param command: (str) start or stop polling :param delay: (int) time dela...	[ "def", "poll", "(", "self", ",", "command", "=", "\"start\"", ",", "*", ",", "delay", "=", "120", ")", ":", "if", "delay", ">", "120", ":", "self", ".", "_log", ".", "warning", "(", "\"Segmentation not supported, forcing delay to 120 seconds (or higher)\"", ")...	35.065574	18.47541
def start_workunit(self, workunit): """Implementation of Reporter callback.""" if not self.is_under_main_root(workunit): return label_format = self._get_label_format(workunit) if label_format == LabelFormat.FULL: if not WorkUnitLabel.SUPPRESS_LABEL in workunit.labels: self._emit_in...	[ "def", "start_workunit", "(", "self", ",", "workunit", ")", ":", "if", "not", "self", ".", "is_under_main_root", "(", "workunit", ")", ":", "return", "label_format", "=", "self", ".", "_get_label_format", "(", "workunit", ")", "if", "label_format", "==", "La...	35.25	16.85
def full_pixels(space, data, gap_pixels=1): """returns the given data distributed in the space ensuring it's full pixels and with the given gap. this will result in minor sub-pixel inaccuracies. XXX - figure out where to place these guys as they are quite useful """ available = space - (len(data...	[ "def", "full_pixels", "(", "space", ",", "data", ",", "gap_pixels", "=", "1", ")", ":", "available", "=", "space", "-", "(", "len", "(", "data", ")", "-", "1", ")", "*", "gap_pixels", "# 8 recs 7 gaps", "res", "=", "[", "]", "for", "i", ",", "val",...	33.105263	18.315789
def cleanup(first_I, first_Z): """ cleans up unbalanced steps failure can be from unbalanced final step, or from missing steps, this takes care of missing steps """ cont = 0 Nmin = len(first_I) if len(first_Z) < Nmin: Nmin = len(first_Z) for kk in range(Nmin): if ...	[ "def", "cleanup", "(", "first_I", ",", "first_Z", ")", ":", "cont", "=", "0", "Nmin", "=", "len", "(", "first_I", ")", "if", "len", "(", "first_Z", ")", "<", "Nmin", ":", "Nmin", "=", "len", "(", "first_Z", ")", "for", "kk", "in", "range", "(", ...	30.681818	11.863636
def strptime(s, fmt, tzinfo=None): """ A function to replace strptime in the time module. Should behave identically to the strptime function except it returns a datetime.datetime object instead of a time.struct_time object. Also takes an optional tzinfo parameter which is a time zone info object. """ res = time...	[ "def", "strptime", "(", "s", ",", "fmt", ",", "tzinfo", "=", "None", ")", ":", "res", "=", "time", ".", "strptime", "(", "s", ",", "fmt", ")", "return", "datetime", ".", "datetime", "(", "tzinfo", "=", "tzinfo", ",", "*", "res", "[", ":", "6", ...	42.222222	14.222222
def iter(self, headers_only=False, page_size=None): """Yield all time series objects selected by the query. The generator returned iterates over :class:`~google.cloud.monitoring_v3.types.TimeSeries` objects containing points ordered from oldest to newest. Note that the :class:`...	[ "def", "iter", "(", "self", ",", "headers_only", "=", "False", ",", "page_size", "=", "None", ")", ":", "if", "self", ".", "_end_time", "is", "None", ":", "raise", "ValueError", "(", "\"Query time interval not specified.\"", ")", "params", "=", "self", ".", ...	35.571429	21.971429
def decrypt(self, ciphertext): 'Decrypt a block of cipher text using the AES block cipher.' if len(ciphertext) != 16: raise ValueError('wrong block length') rounds = len(self._Kd) - 1 (s1, s2, s3) = [3, 2, 1] a = [0, 0, 0, 0] # Convert ciphertext to (ints ^...	[ "def", "decrypt", "(", "self", ",", "ciphertext", ")", ":", "if", "len", "(", "ciphertext", ")", "!=", "16", ":", "raise", "ValueError", "(", "'wrong block length'", ")", "rounds", "=", "len", "(", "self", ".", "_Kd", ")", "-", "1", "(", "s1", ",", ...	40.454545	23.30303
def _query_iterator(result, chunksize, columns, index_col=None, coerce_float=True, parse_dates=None): """Return generator through chunked result set""" while True: data = result.fetchmany(chunksize) if not data: break else: ...	[ "def", "_query_iterator", "(", "result", ",", "chunksize", ",", "columns", ",", "index_col", "=", "None", ",", "coerce_float", "=", "True", ",", "parse_dates", "=", "None", ")", ":", "while", "True", ":", "data", "=", "result", ".", "fetchmany", "(", "ch...	41.5	19.916667
def get_form(self, request, obj=None, **kwargs): """ Extend the form for the given plugin with the form SharableCascadeForm """ Form = type(str('ExtSharableForm'), (SharableCascadeForm, kwargs.pop('form', self.form)), {}) Form.base_fields['shared_glossary'].limit_choices_to = dic...	[ "def", "get_form", "(", "self", ",", "request", ",", "obj", "=", "None", ",", "", "", "kwargs", ")", ":", "Form", "=", "type", "(", "str", "(", "'ExtSharableForm'", ")", ",", "(", "SharableCascadeForm", ",", "kwargs", ".", "pop", "(", "'form'", ","...	58.375	27.625
def canonicalize(ctx, statement, namespace_targets, version, api, config_fn): """Canonicalize statement Target namespaces can be provided in the following manner: bel stmt canonicalize "<BELStmt>" --namespace_targets '{"HGNC": ["EG", "SP"], "CHEMBL": ["CHEBI"]}' the value of target_namespa...	[ "def", "canonicalize", "(", "ctx", ",", "statement", ",", "namespace_targets", ",", "version", ",", "api", ",", "config_fn", ")", ":", "if", "config_fn", ":", "config", "=", "bel", ".", "db", ".", "Config", ".", "merge_config", "(", "ctx", ".", "config",...	36.311111	22.444444
def sort(self): """ Sort the families by template name. .. rubric:: Example >>> party = Party(families=[Family(template=Template(name='b')), ... Family(template=Template(name='a'))]) >>> party[0] Family of 0 detections from template b ...	[ "def", "sort", "(", "self", ")", ":", "self", ".", "families", ".", "sort", "(", "key", "=", "lambda", "x", ":", "x", ".", "template", ".", "name", ")", "return", "self" ]	29.1875	19.3125
def backup_download(self, filename=None): """Download backup file from WebDAV (cloud only).""" if self.deploymentType != 'Cloud': logging.warning( 'This functionality is not available in Server version') return None remote_file = self.backup_progress()['fi...	[ "def", "backup_download", "(", "self", ",", "filename", "=", "None", ")", ":", "if", "self", ".", "deploymentType", "!=", "'Cloud'", ":", "logging", ".", "warning", "(", "'This functionality is not available in Server version'", ")", "return", "None", "remote_file",...	45.653846	16.346154
def pow4(x, alpha, a, b, c): """pow4 Parameters ---------- x: int alpha: float a: float b: float c: float Returns ------- float c - (ax+b)-alpha """ return c - (ax+b)**-alpha	[ "def", "pow4", "(", "x", ",", "alpha", ",", "a", ",", "b", ",", "c", ")", ":", "return", "c", "-", "(", "a", "", "x", "+", "b", ")", "*", "-", "alpha" ]	13.176471	23.176471
def set_attributes(self, obj, **attributes): """ Set attributes. :param obj: requested object. :param attributes: dictionary of {attribute: value} to set """ attributes_url = '{}/{}/attributes'.format(self.session_url, obj.ref) attributes_list = [{u'name': str(name), u'...	[ "def", "set_attributes", "(", "self", ",", "obj", ",", "", "", "attributes", ")", ":", "attributes_url", "=", "'{}/{}/attributes'", ".", "format", "(", "self", ".", "session_url", ",", "obj", ".", "ref", ")", "attributes_list", "=", "[", "{", "u'name'", ...	47.818182	26.727273
def normalize_name(name, overrides=None): '''Normalize the key name to title case. For example, ``normalize_name('content-id')`` will become ``Content-Id`` Args: name (str): The name to normalize. overrides (set, sequence): A set or sequence containing keys that should be cased...	[ "def", "normalize_name", "(", "name", ",", "overrides", "=", "None", ")", ":", "normalized_name", "=", "name", ".", "title", "(", ")", "if", "overrides", ":", "override_map", "=", "dict", "(", "[", "(", "name", ".", "title", "(", ")", ",", "name", ")...	31.041667	26.958333

def encode_fetch_request(cls, payloads=(), max_wait_time=100, min_bytes=4096): """ Encodes a FetchRequest struct Arguments: payloads: list of FetchRequestPayload max_wait_time (int, optional): ms to block waiting for min_bytes data. Defaults to 100. ...

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def get_common_properties(root): """Read common properties from root of ReSpecTh XML file. Args: root (`~xml.etree.ElementTree.Element`): Root of ReSpecTh XML file Returns: properties (`dict`): Dictionary with common properties """ properties = {} for elem in root.iterfind('co...

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def encode(request, data): """ Add request content data to request body, set Content-type header. Should be overridden by subclasses if not using JSON encoding. Args: request (HTTPRequest): The request object. data (dict, None): Data to be encoded. Returns: ...

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def _update_weight(self, data, R, n_local_subj, local_weight_offset): """update local weight Parameters ---------- data : list of 2D array, element i has shape=[n_voxel, n_tr] Subjects' fMRI data. R : list of 2D arrays, element i has shape=[n_voxel, n_dim] ...

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35.666667

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def get_patches_ignore_regex(self): """Returns a string representing a regex for filtering out patches This string is parsed from a comment in the specfile that contains the word filter-out followed by an equal sign. For example, a comment as such: # patches_ignore=(regex) ...

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def check_overlap(self, other): """Check overlap with another spectrum. Also see :ref:`pysynphot-command-checko`. This checks whether the wavelength set of the given spectrum is defined everywhere within ``self``. Wavelength values where throughput is zero are excluded from the ...

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28.029851

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def release(self): """Release a semaphore, incrementing the internal counter by one. When the counter is zero on entry and another thread is waiting for it to become larger than zero again, wake up that thread. If the number of releases exceeds the number of acquires, raise a V...

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36

20.933333

def parse_args(argv=None): """Parses CLI arguments. Args: argv: optional list of arguments to parse. sys.argv is used by default. Raises: dvc.exceptions.DvcParserError: raised for argument parsing errors. """ parent_parser = get_parent_parser() # Main parser desc = "Data V...

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24.195652

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def scalars_impl(self, run, tag_regex_string): """Given a tag regex and single run, return ScalarEvents. Args: run: A run string. tag_regex_string: A regular expression that captures portions of tags. Raises: ValueError: if the scalars plugin is not registered. Returns: A dict...

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28.87931

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def sflow_collector_collector_port_number(self, **kwargs): """Auto Generated Code """ config = ET.Element("config") sflow = ET.SubElement(config, "sflow", xmlns="urn:brocade.com:mgmt:brocade-sflow") collector = ET.SubElement(sflow, "collector") collector_ip_address_key = ...

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52.133333

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def inject(fun: Callable) -> Callable: """ A decorator for injection dependencies into functions/methods, based on their type annotations. .. code-block:: python class SomeClass: @inject def __init__(self, my_dep: DepType) -> None: self.my_dep = my_dep ...

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27.439024

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def get_version() : "returns the libdbus library version as a tuple of integers (major, minor, micro)." major = ct.c_int() minor = ct.c_int() micro = ct.c_int() dbus.dbus_get_version(ct.byref(major), ct.byref(minor), ct.byref(micro)) return \ (major.value, minor.value, micro.value)

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38.375

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def write_ds9region(self, region, *args, **kwargs): """Create a ds9 compatible region file from the ROI. It calls the `to_ds9` method and write the result to the region file. Only the file name is required. All other parameters will be forwarded to the `to_ds9` method, see the documentation of...

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40.2

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def items(self): """ Returns an iterator over the named bitfields in the structure as 2-tuples of (key, value). Uses a clone so as to only read from the underlying data once. """ temp = self.clone() return [(f, getattr(temp, f)) for f in iter(self)]

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34.111111

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def get_stack_data(self, frame, traceback, event_type): """Get the stack frames data at each of the hooks above (Ie. for each line of the Python code)""" heap_data = Heap(self.options) stack_data = StackFrames(self.options) stack_frames, cur_frame_ind = self.get_stack(frame, trac...

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def pipe_commands_to_file(cmds, path, extra_env=None, show_stderr=False): """ Executes the list of commands piping each one into the next and writing stdout of the last process into a file at the given path. """ env = extend_env(extra_env) if extra_env else None env_str = (get_env_str(extra_env)...

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36.794118

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def call(func, *args, **kwargs): """ :return: a delegator function that returns a tuple (``func``, (seed tuple,)+ ``args``, ``kwargs``). That is, seed tuple is inserted before supplied positional arguments. By default, a thread wrapping ``func`` and all those arguments is spawned. ""...

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39.6

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def maxnorm_regularizer(scale=1.0): """Max-norm regularization returns a function that can be used to apply max-norm regularization to weights. More about max-norm, see `wiki-max norm <https://en.wikipedia.org/wiki/Matrix_norm#Max_norm>`_. The implementation follows `TensorFlow contrib <https://github.com/...

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41.136364

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def _get_merged(self, tax_id): """Returns tax_id into which `tax_id` has been merged or `tax_id` of not obsolete. """ cmd = """ SELECT COALESCE( (SELECT new_tax_id FROM {merged} WHERE old_tax_id = {x}), {x}) """.format(x=self.placeholder, merged=self.me...

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30.066667

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def send_bcm(bcm_socket, data): """ Send raw frame to a BCM socket and handle errors. """ try: return bcm_socket.send(data) except OSError as e: base = "Couldn't send CAN BCM frame. OS Error {}: {}\n".format(e.errno, e.strerror) if e.errno == errno.EINVAL: raise ...

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32.3

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def _Dhcpcd(self, interfaces, logger): """Use dhcpcd to activate the interfaces. Args: interfaces: list of string, the output device names to enable. logger: logger object, used to write to SysLog and serial port. """ for interface in interfaces: dhcpcd = ['/sbin/dhcpcd'] try: ...

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39.315789

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async def uint(self, elem, elem_type, params=None): """ Integer types :param elem: :param elem_type: :param params: :return: """ if self.writing: return IntegerModel(elem, elem_type.WIDTH) if self.modelize else elem else: re...

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def save(self, full=False, force=False): ''' Saves the current entity to Redis. Will only save changed data by default, but you can force a full save by passing ``full=True``. If the underlying entity was deleted and you want to re-save the entity, you can pass ``force=True`` to...

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33.392857

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def return_features_base(dbpath, set_object, names): """ Generic function which returns a list of extracted features from the database Parameters ---------- dbpath : string, path to SQLite database file set_object : object (either TestSet or TrainSet) which is stored in the database names :...

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38.764706

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def DoRarExtraction(rarArchive, targetFile, dstDir): """ RAR extraction with exception catching Parameters ---------- rarArchive : RarFile object RarFile object to extract. targetFile : string Target file name. dstDir : string Target directory. Returns ---------- boolea...

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20.666667

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def is_element_visible(driver, selector, by=By.CSS_SELECTOR): """ Returns whether the specified element selector is visible on the page. @Params driver - the webdriver object (required) selector - the locator that is used (required) by - the method to search for the locator (Default: By.CSS_SELE...

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def numericalparameters(self): """Numeric parameter declaration lines.""" lines = Lines() if self.model.NUMERICAL: lines.add(0, '@cython.final') lines.add(0, 'cdef class NumConsts(object):') for name in ('nmb_methods', 'nmb_stages'): lines.add(...

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54.65

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def remove_prefix(self, id): """ Remove a prefix from pool 'id'. """ if 'prefix' not in request.params: abort(400, 'Missing prefix.') prefix = Prefix.get(int(request.params['prefix'])) prefix.pool = None prefix.save() redirect(url(controller = 'pool'...

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30.727273

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def InitUser(): """Initialize application user. Retrieve existing user credentials from datastore or add new user. Returns: AppUser instance of the application user. """ result = AppUser.query(AppUser.user == users.get_current_user()).fetch() if result: app_user = result[0] else: app_user =...

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def create_card(self, base_info, payee, invoice_type, detail=None): """ 创建发票卡券模板注意这里的对象和会员卡有类似之处，但是含义有不同。创建发票卡券模板是创建发票卡券的基础。详情请参考 https://mp.weixin.qq.com/wiki?id=mp1496561481_1TyO7 :param base_info:发票卡券模板基础信息 :type base_info: dict :param payee: 收款方（开票方...

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def applymap(self, func, subset=None, **kwargs): """ Apply a function elementwise, updating the HTML representation with the result. Parameters ---------- func : function ``func`` should take a scalar and return a scalar subset : IndexSlice ...

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def _step2func(self, samples, force, ipyclient): """ hidden wrapped function to start step 2""" ## print header if self._headers: print("\n Step 2: Filtering reads ") ## If no samples in this assembly then it means you skipped step1, if not self.samples.keys(): ...

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def execute(self, lf_raw: str) -> int: """ Very basic model for executing friction logical forms. For now returns answer index (or -1 if no answer can be concluded) """ # Remove "a:" prefixes from attributes (hack) logical_form = re.sub(r"\(a:", r"(", lf_raw) pars...

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def line_to(self, x, y): """Adds a line to the path from the current point to position ``(x, y)`` in user-space coordinates. After this call the current point will be ``(x, y)``. If there is no current point before the call to :meth:`line_to` this method will behave as ``context...

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def transform(function): """Return a processor for a style's "transform" function. """ def transform_fn(_, result): if isinstance(result, Nothing): return result lgr.debug("Transforming %r with %r", result, function) try: retur...

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def get_formset_class(self, form, name): """ Either return the formset class that was provided as argument to the __init__ method, or build one based on the ``parent_model`` and ``model`` attributes. """ if self.formset_class is not None: return self.formset_c...

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def save_form(self, commit=True): """ This calls Django's ``ModelForm.save()``. It only takes care of saving this actual form, and leaves the nested forms and formsets alone. We separate this out of the :meth:`~django_superform.forms.SuperModelForm.save` method to make ...

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def get_visible_commands(self) -> List[str]: """Returns a list of commands that have not been hidden or disabled.""" commands = self.get_all_commands() # Remove the hidden commands for name in self.hidden_commands: if name in commands: commands.remove(name) ...

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def _check_param_limits(self, q, chiA, chiB, allow_extrap): """ Checks that params are within allowed range of paramters. Raises a warning if outside self.soft_param_lims limits and raises an error if outside self.hard_param_lims. If allow_extrap=True, skips these checks. """ ...

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def enable(self, snmp_agent, snmp_location=None, snmp_interface=None): """ Enable SNMP on the engine. Specify a list of interfaces by ID to enable only on those interfaces. Only interfaces that have NDI's are supported. :param str,Element snmp_agent: the SNMP agent refer...

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def split_data_cwl_items(items, default_keys=None): """Split a set of CWL output dictionaries into data samples and CWL items. Handles cases where we're arrayed on multiple things, like a set of regional VCF calls and data objects. """ key_lens = set([]) for data in items: key_lens.add(...

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def deletegroup(self, group_id): """ Deletes an group by ID :param group_id: id of the group to delete :return: True if it deleted, False if it couldn't. False could happen for several reasons, but there isn't a good way of differentiating them """ request = requests.del...

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def _create_color_buttons(self): """Create color choice buttons""" button_size = (30, 30) button_style = wx.NO_BORDER try: self.linecolor_choice = \ csel.ColourSelect(self, -1, unichr(0x2500), (0, 0, 0), size=button_size, st...

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def requestedFormat(request,acceptedFormat): """Return the response format requested by client Client could specify requested format using: (options are processed in this order) - `format` field in http request - `Accept` header in http request Example: ...

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def get_assessment_offered_mdata(): """Return default mdata map for AssessmentOffered""" return { 'level': { 'element_label': { 'text': 'level', 'languageTypeId': str(DEFAULT_LANGUAGE_TYPE), 'scriptTypeId': str(DEFAULT_SCRIPT_TYPE), ...

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def accel_move_tab_left(self, *args): # TODO KEYBINDINGS ONLY """ Callback to move a tab to the left """ pos = self.get_notebook().get_current_page() if pos != 0: self.move_tab(pos, pos - 1) return True

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def satellites_configuration(self): """Return all the configuration data of satellites :return: dict containing satellites data Output looks like this :: {'arbiter' : [{'property1':'value1' ..}, {'property2', 'value11' ..}, ..], 'scheduler': [..], 'poller': [..], ...

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def erase_characters(self, count=None): """Erase the indicated # of characters, starting with the character at cursor position. Character attributes are set cursor attributes. The cursor remains in the same position. :param int count: number of characters to erase. .. note:: ...

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def put_events(environment, start_response, headers): """ Store events in backends POST body should contain a JSON encoded version of: { namespace: namespace_name (optional), events: { stream_name1 : [event1, event2, ...], stream_name2 : [event1, event2, ...], ... } }...

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def get_collection(self, name): '''get a collection, if it exists, otherwise return None. ''' from sregistry.database.models import Collection return Collection.query.filter(Collection.name == name).first()

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def reset(self): """Reset itself and recursively all its children.""" watchers.MATCHER.debug("Node <%s> reset", self) self._reset() for child in self.children: child.node.reset()

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def _read_message(self): """ Reads a message from the socket and converts it to a message. """ # first 4 bytes is Big-Endian payload length payload_info = self._read_bytes_from_socket(4) read_len = unpack(">I", payload_info)[0] # now read the payload payload = self._read...

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def create(obj: PersistedObject, obj_type: Type[Any], arg_name: str): """ Helper method provided because we actually can't put that in the constructor, it creates a bug in Nose tests https://github.com/nose-devs/nose/issues/725 :param obj: :param obj_type: :param arg_nam...

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def _zforce(self,R,z,phi=0.,t=0.): """ NAME: zforce PURPOSE: evaluate vertical force K_z (R,z) INPUT: R - Cylindrical Galactocentric radius z - vertical height phi - azimuth t - time OUTPUT: K_z (R,z) ...

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def read(input_taxonomy_io): '''Parse in a taxonomy from the given I/O. Parameters ---------- input_taxonomy_io: io an open io object that is iterable. This stream is neither opened nor closed by this method Returns ------- A GreenGenesTa...

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def gc(ctx): """Runs housekeeping tasks to free up space. For now, this only removes saved but unused (unreachable) test results. """ vcs = ctx.obj['vcs'] count = 0 with locking.lock(vcs, locking.Lock.tests_history): known_signatures = set(get_committed_signatures(vcs) + get_staged_sign...

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def get_provider(self, name): """Allows for lazy instantiation of providers (Jinja2 templating is heavy, so only instantiate it if necessary).""" if name not in self.providers: cls = self.provider_classes[name] # instantiate the provider self.providers[name] =...

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def cuts_from_bbox(mask_nii, cuts=3): """Finds equi-spaced cuts for presenting images""" from nibabel.affines import apply_affine mask_data = mask_nii.get_data() > 0.0 # First, project the number of masked voxels on each axes ijk_counts = [ mask_data.sum(2).sum(1), # project sagittal plan...

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def update_gol(self): """ Function that performs one step of the Game of Life """ updated_grid = [[self.update_cell(row, col) \ for col in range(self.get_grid_width())] \ for row in range(self.get_grid_height())] ...

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def debug(s, *args): """debug(s, x1, ..., xn) logs s.format(x1, ..., xn).""" # Get the path name and line number of the function which called us. previous_frame = inspect.currentframe().f_back try: pathname, lineno, _, _, _ = inspect.getframeinfo(previous_frame) # if path is in cwd, simp...

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def U(Document, __raw__=None, **update): """Generate a MongoDB update document through paramater interpolation. Arguments passed by name have their name interpreted as an optional operation prefix (defaulting to `set`, e.g. `push`), a double-underscore separated field reference (e.g. `foo`, or `foo__bar`, or `foo_...

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def shutdown(self): """Shutdown ZAP.""" if not self.is_running(): self.logger.warn('ZAP is not running.') return self.logger.debug('Shutting down ZAP.') self.zap.core.shutdown() timeout_time = time.time() + self.timeout while self.is_running(): ...

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def feed_fetch_force(request, id, redirect_to): """Forcibly fetch tweets for the feed""" feed = Feed.objects.get(id=id) feed.fetch(force=True) msg = _("Fetched tweets for %s" % feed.name) messages.success(request, msg, fail_silently=True) return HttpResponseRedirect(redirect_to)

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def set_max_beds(self, max_beds): """ The maximum number of beds. :param max_beds: :return: """ if not isinstance(max_beds, int): raise DaftException("Maximum number of beds should be an integer.") self._max_beds = str(max_beds) self._query_pa...

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def results(self): """ Returns a list of tuple, ordered by similarity. """ d = dict() words = [word.strip() for word in self.haystack] if not words: raise NoResultException('No similar word found.') for w in words: d[w] = Levenshtein.rati...

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def render_headers(self): """ Renders the headers for this request field. """ lines = [] sort_keys = ['Content-Disposition', 'Content-Type', 'Content-Location'] for sort_key in sort_keys: if self.headers.get(sort_key, False): lines.append('%s:...

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def to_grayscale(img): """Convert PIL image to numpy grayscale array and numpy alpha array. Args: img (PIL.Image): PIL Image object. Returns: (gray, alpha): both numpy arrays. """ gray = numpy.asarray(ImageOps.grayscale(img)).astype(numpy.float) imbands = img.getbands() alpha ...

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def to_structure(matrix, alpha=1): """Compute best matching 3D genome structure from underlying input matrix using ShRec3D-derived method from Lesne et al., 2014. Link: https://www.ncbi.nlm.nih.gov/pubmed/25240436 The method performs two steps: first compute distance matrix by treating contact dat...

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def format_config_for_graphql(config): '''This recursive descent thing formats a config dict for GraphQL.''' def _format_config_subdict(config, current_indent=0): check.dict_param(config, 'config', key_type=str) printer = IndentingStringIoPrinter(indent_level=2, current_indent=current_indent) ...

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def plot_reliability_diagram(confidence, labels, filepath): """ Takes in confidence values for predictions and correct labels for the data, plots a reliability diagram. :param confidence: nb_samples x nb_classes (e.g., output of softmax) :param labels: vector of nb_samples :param filepath: where to save the...

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def _WritePathInfo(self, client_id, path_info): """Writes a single path info record for given client.""" if client_id not in self.metadatas: raise db.UnknownClientError(client_id) path_record = self._GetPathRecord(client_id, path_info) path_record.AddPathInfo(path_info) parent_path_info = pa...

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def methodReturnReceived(self, mret): """ Called when a method return message is received """ d, timeout = self._pendingCalls.get(mret.reply_serial, (None, None)) if timeout: timeout.cancel() if d: del self._pendingCalls[mret.reply_serial] ...

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def _extract_columns(self, table_name): ''' a method to extract the column properties of an existing table ''' import re from sqlalchemy import MetaData, VARCHAR, INTEGER, BLOB, BOOLEAN, FLOAT from sqlalchemy.dialects.postgresql import DOUBLE_PRECISION, BIT, BYTEA ...

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45.268293

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def verify_response_duration(self, expected=None, zero=0, threshold_percent=0, break_in_fail=True): """ Verify that response duration is in bounds. :param expected: seconds what is expected duration :param zero: seconds if one to normalize duration befor...

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def isValue(self): """Indicate that |ASN.1| object represents ASN.1 value. If *isValue* is `False` then this object represents just ASN.1 schema. If *isValue* is `True` then, in addition to its ASN.1 schema features, this object can also be used like a Python built-in object (e.g. `int...

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41.580645

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def download(supported_tags, date_array, tag, sat_id, ftp_site='cdaweb.gsfc.nasa.gov', data_path=None, user=None, password=None, fake_daily_files_from_monthly=False): """Routine to download NASA CDAWeb CDF data. This routine is intended to be used by pysat instrumen...

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37.330097

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def group_by(self, key_selector=identity, element_selector=identity, result_selector=lambda key, grouping: grouping): '''Groups the elements according to the value of a key extracted by a selector function. Note: This method has different behaviour to itertools...

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46.5

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def get_vboxes(self): """ Get the maximum ID of the VBoxes :return: Maximum VBox ID :rtype: int """ vbox_list = [] vbox_max = None for node in self.nodes: if node['type'] == 'VirtualBoxVM': vbox_list.append(node['vbox_id']) ...

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24.6875

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def __write_list_tmpl(html_tpl): ''' doing for directory. ''' out_dir = os.path.join(os.getcwd(), CRUD_PATH, 'infolist') if os.path.exists(out_dir): pass else: os.mkdir(out_dir) # for var_name in VAR_NAMES: for var_name, bl_val in SWITCH_DICS.items(): if var_name....

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37.681818

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def get_ipv6_neighbors_table(self): """ Get IPv6 neighbors table information. Return a list of dictionaries having the following set of keys: * interface (string) * mac (string) * ip (string) * age (float) in seconds * state (string) ...

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36.480769

14.519231

def add_fields(store_name, field_names): """ A class-decorator that creates layout managers with a set of named fields. """ def decorate(cls): def _add(index, name): def _set_dir(self, value): getattr(self, store_name)[index] = value def _get_dir(self): return getattr...

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30.882353

21.235294

def _message(self, beacon_config, invert_hello=False): """ Overridden :meth:`.WBeaconGouverneurMessenger._message` method. Appends encoded host group names to requests and responses. :param beacon_config: beacon configuration :return: bytes """ m = WBeaconGouverneurMessenger._message(self, beacon_config, i...

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41.5

19.416667

def remove(self, projectname=None, complete=False, yes=False, all_projects=False, **kwargs): """ Delete an existing experiment and/or projectname Parameters ---------- projectname: str The name for which the data shall be removed. If True, the ...

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40.710145

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def get_dev_alarms(auth, url, devid=None, devip=None): """ function takes the devId of a specific device and issues a RESTFUL call to get the current alarms for the target device. :param devid: int or str value of the target device :param devip: str of ipv4 address of the target device :param...

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35.976744

25

def setRandomParams(self): """ set random hyperparameters """ params = SP.randn(self.getNumberParams()) self.setParams(params)

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26.833333

6.5

def poll(self, command="start", *, delay=120): """ Poll a point every x seconds (delay=x sec) Can be stopped by using point.poll('stop') or .poll(0) or .poll(False) or by setting a delay = 0 :param command: (str) start or stop polling :param delay: (int) time dela...

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35.065574

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def start_workunit(self, workunit): """Implementation of Reporter callback.""" if not self.is_under_main_root(workunit): return label_format = self._get_label_format(workunit) if label_format == LabelFormat.FULL: if not WorkUnitLabel.SUPPRESS_LABEL in workunit.labels: self._emit_in...

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35.25

16.85

def full_pixels(space, data, gap_pixels=1): """returns the given data distributed in the space ensuring it's full pixels and with the given gap. this will result in minor sub-pixel inaccuracies. XXX - figure out where to place these guys as they are quite useful """ available = space - (len(data...

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33.105263

18.315789

def cleanup(first_I, first_Z): """ cleans up unbalanced steps failure can be from unbalanced final step, or from missing steps, this takes care of missing steps """ cont = 0 Nmin = len(first_I) if len(first_Z) < Nmin: Nmin = len(first_Z) for kk in range(Nmin): if ...

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30.681818

11.863636

def strptime(s, fmt, tzinfo=None): """ A function to replace strptime in the time module. Should behave identically to the strptime function except it returns a datetime.datetime object instead of a time.struct_time object. Also takes an optional tzinfo parameter which is a time zone info object. """ res = time...

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42.222222

14.222222

def iter(self, headers_only=False, page_size=None): """Yield all time series objects selected by the query. The generator returned iterates over :class:`~google.cloud.monitoring_v3.types.TimeSeries` objects containing points ordered from oldest to newest. Note that the :class:`...

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35.571429

21.971429

def decrypt(self, ciphertext): 'Decrypt a block of cipher text using the AES block cipher.' if len(ciphertext) != 16: raise ValueError('wrong block length') rounds = len(self._Kd) - 1 (s1, s2, s3) = [3, 2, 1] a = [0, 0, 0, 0] # Convert ciphertext to (ints ^...

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40.454545

23.30303

def _query_iterator(result, chunksize, columns, index_col=None, coerce_float=True, parse_dates=None): """Return generator through chunked result set""" while True: data = result.fetchmany(chunksize) if not data: break else: ...

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41.5

19.916667

def get_form(self, request, obj=None, **kwargs): """ Extend the form for the given plugin with the form SharableCascadeForm """ Form = type(str('ExtSharableForm'), (SharableCascadeForm, kwargs.pop('form', self.form)), {}) Form.base_fields['shared_glossary'].limit_choices_to = dic...

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58.375

27.625

def canonicalize(ctx, statement, namespace_targets, version, api, config_fn): """Canonicalize statement Target namespaces can be provided in the following manner: bel stmt canonicalize "<BELStmt>" --namespace_targets '{"HGNC": ["EG", "SP"], "CHEMBL": ["CHEBI"]}' the value of target_namespa...

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36.311111

22.444444

def sort(self): """ Sort the families by template name. .. rubric:: Example >>> party = Party(families=[Family(template=Template(name='b')), ... Family(template=Template(name='a'))]) >>> party[0] Family of 0 detections from template b ...

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29.1875

19.3125

def backup_download(self, filename=None): """Download backup file from WebDAV (cloud only).""" if self.deploymentType != 'Cloud': logging.warning( 'This functionality is not available in Server version') return None remote_file = self.backup_progress()['fi...

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45.653846

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def pow4(x, alpha, a, b, c): """pow4 Parameters ---------- x: int alpha: float a: float b: float c: float Returns ------- float c - (a*x+b)**-alpha """ return c - (a*x+b)**-alpha

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13.176471

23.176471

def set_attributes(self, obj, **attributes): """ Set attributes. :param obj: requested object. :param attributes: dictionary of {attribute: value} to set """ attributes_url = '{}/{}/attributes'.format(self.session_url, obj.ref) attributes_list = [{u'name': str(name), u'...

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47.818182

26.727273

def normalize_name(name, overrides=None): '''Normalize the key name to title case. For example, ``normalize_name('content-id')`` will become ``Content-Id`` Args: name (str): The name to normalize. overrides (set, sequence): A set or sequence containing keys that should be cased...

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31.041667

26.958333