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 _pad(arr, n, dir='right'): """Pad an array with zeros along the first axis. Parameters ---------- n : int Size of the returned array in the first axis. dir : str Direction of the padding. Must be one 'left' or 'right'. """ assert dir in ('left', 'right') if n < 0: ...	[ "def", "_pad", "(", "arr", ",", "n", ",", "dir", "=", "'right'", ")", ":", "assert", "dir", "in", "(", "'left'", ",", "'right'", ")", "if", "n", "<", "0", ":", "raise", "ValueError", "(", "\"'n' must be positive: {0}.\"", ".", "format", "(", "n", ")"...	26.621622	0.000979
def plot(self): """ return a toyplot barplot of the results table. """ if self.results_table == None: return "no results found" else: bb = self.results_table.sort_values( by=["ABCD", "ACBD"], ascending=[False, True], ...	[ "def", "plot", "(", "self", ")", ":", "if", "self", ".", "results_table", "==", "None", ":", "return", "\"no results found\"", "else", ":", "bb", "=", "self", ".", "results_table", ".", "sort_values", "(", "by", "=", "[", "\"ABCD\"", ",", "\"ACBD\"", "]"...	28.333333	0.009488
def create_snapshot(self, description='', compute_total=False): """ Collect current per instance statistics and saves total amount of memory associated with the Python process. If `compute_total` is `True`, the total consumption of all objects known to asizeof is computed. The...	[ "def", "create_snapshot", "(", "self", ",", "description", "=", "''", ",", "compute_total", "=", "False", ")", ":", "try", ":", "# TODO: It is not clear what happens when memory is allocated or", "# released while this function is executed but it will likely lead", "# to inconsis...	42.333333	0.002025
def objLon(ID, chart): """ Returns the longitude of an object. """ if ID.startswith('$R'): # Return Ruler ID = ID[2:] obj = chart.get(ID) rulerID = essential.ruler(obj.sign) ruler = chart.getObject(rulerID) return ruler.lon elif ID.startswith('Pars'): ...	[ "def", "objLon", "(", "ID", ",", "chart", ")", ":", "if", "ID", ".", "startswith", "(", "'$R'", ")", ":", "# Return Ruler", "ID", "=", "ID", "[", "2", ":", "]", "obj", "=", "chart", ".", "get", "(", "ID", ")", "rulerID", "=", "essential", ".", ...	28.125	0.002151
def free_functions( self, name=None, function=None, return_type=None, arg_types=None, header_dir=None, header_file=None, recursive=None, allow_empty=None): """ Returns a set of free function decla...	[ "def", "free_functions", "(", "self", ",", "name", "=", "None", ",", "function", "=", "None", ",", "return_type", "=", "None", ",", "arg_types", "=", "None", ",", "header_dir", "=", "None", ",", "header_file", "=", "None", ",", "recursive", "=", "None", ...	29.827586	0.00224
def split_expression_by_depth(where, schema, output=None, var_to_depth=None): """ :param where: EXPRESSION TO INSPECT :param schema: THE SCHEMA :param output: :param var_to_depth: MAP FROM EACH VARIABLE NAME TO THE DEPTH :return: """ """ It is unfortunate that ES can not handle expre...	[ "def", "split_expression_by_depth", "(", "where", ",", "schema", ",", "output", "=", "None", ",", "var_to_depth", "=", "None", ")", ":", "\"\"\"\n It is unfortunate that ES can not handle expressions that\n span nested indexes. This will split your where clause\n returning ...	32.447368	0.001575
def missing_inds(x, format_data=True): """ Returns indices of missing data This function is useful to identify rows of your array that contain missing data or nans. The returned indices can be used to remove the rows with missing data, or label the missing data points that are interpolated usi...	[ "def", "missing_inds", "(", "x", ",", "format_data", "=", "True", ")", ":", "if", "format_data", ":", "x", "=", "formatter", "(", "x", ",", "ppca", "=", "False", ")", "inds", "=", "[", "]", "for", "arr", "in", "x", ":", "if", "np", ".", "argwhere...	26.675676	0.001955
def get_orders(self, product_id=None, status=None, **kwargs): """ List your current open orders. This method returns a generator which may make multiple HTTP requests while iterating through it. Only open or un-settled orders are returned. As soon as an order is no longer open ...	[ "def", "get_orders", "(", "self", ",", "product_id", "=", "None", ",", "status", "=", "None", ",", "", "", "kwargs", ")", ":", "params", "=", "kwargs", "if", "product_id", "is", "not", "None", ":", "params", "[", "'product_id'", "]", "=", "product_id...	41.015625	0.000744
def crypto_sign_ed25519_sk_to_curve25519(secret_key_bytes): """ Converts a secret Ed25519 key (encoded as bytes ``secret_key_bytes``) to a secret Curve25519 key as bytes. Raises a ValueError if ``secret_key_bytes``is not of length ``crypto_sign_SECRETKEYBYTES`` :param secret_key_bytes: bytes ...	[ "def", "crypto_sign_ed25519_sk_to_curve25519", "(", "secret_key_bytes", ")", ":", "if", "len", "(", "secret_key_bytes", ")", "!=", "crypto_sign_SECRETKEYBYTES", ":", "raise", "exc", ".", "ValueError", "(", "\"Invalid curve secret key\"", ")", "curve_secret_key_len", "=", ...	36.083333	0.001125
def pvariance(data, mu=None): """Return the population variance of ``data``. data should be an iterable of Real-valued numbers, with at least one value. The optional argument mu, if given, should be the mean of the data. If it is missing or None, the mean is automatically calculated. Use this func...	[ "def", "pvariance", "(", "data", ",", "mu", "=", "None", ")", ":", "if", "iter", "(", "data", ")", "is", "data", ":", "data", "=", "list", "(", "data", ")", "n", "=", "len", "(", "data", ")", "if", "n", "<", "1", ":", "raise", "StatisticsError"...	33.666667	0.000962
def target_to_ipv4_short(target): """ Attempt to return a IPv4 short range list from a target string. """ splitted = target.split('-') if len(splitted) != 2: return None try: start_packed = inet_pton(socket.AF_INET, splitted[0]) end_value = int(splitted[1]) except (socket.er...	[ "def", "target_to_ipv4_short", "(", "target", ")", ":", "splitted", "=", "target", ".", "split", "(", "'-'", ")", "if", "len", "(", "splitted", ")", "!=", "2", ":", "return", "None", "try", ":", "start_packed", "=", "inet_pton", "(", "socket", ".", "AF...	38.6875	0.001577
def tostream(func, module_name=None): """ Decorator to convert the function output into a Stream. Useful for generator functions. Note ---- Always use the ``module_name`` input when "decorating" a function that was defined in other module. """ @wraps(func) def new_func(args, *kwargs): return...	[ "def", "tostream", "(", "func", ",", "module_name", "=", "None", ")", ":", "@", "wraps", "(", "func", ")", "def", "new_func", "(", "", "args", ",", "", "", "kwargs", ")", ":", "return", "Stream", "(", "func", "(", "", "args", ",", "", "", ...	24.705882	0.013761
def register(classname, cls): """Add a class to the registry of serializer classes. When a class is registered, an entry for both its classname and its full, module-qualified path are added to the registry. Example: :: class MyClass: pass register('MyClass', MyClass) ...	[ "def", "register", "(", "classname", ",", "cls", ")", ":", "# Module where the class is located", "module", "=", "cls", ".", "__module__", "# Full module path to the class", "# e.g. user.schemas.UserSchema", "fullpath", "=", "'.'", ".", "join", "(", "[", "module", ","...	32.358974	0.000769
def mtime(self): """ Get most recent modify time in timestamp. """ try: return self._stat.st_mtime except: # pragma: no cover self._stat = self.stat() return self.mtime	[ "def", "mtime", "(", "self", ")", ":", "try", ":", "return", "self", ".", "_stat", ".", "st_mtime", "except", ":", "# pragma: no cover", "self", ".", "_stat", "=", "self", ".", "stat", "(", ")", "return", "self", ".", "mtime" ]	26.333333	0.012245
def b6_evalue_filter(handle, e_value, args, *kwargs): """Yields lines from handle with E-value less than or equal to e_value Args: handle (file): B6/M8 file handle, can be any iterator so long as it it returns subsequent "lines" of a B6/M8 entry e_value (float): max E-value to re...	[ "def", "b6_evalue_filter", "(", "handle", ",", "e_value", ",", "", "args", ",", "", "", "kwargs", ")", ":", "for", "entry", "in", "b6_iter", "(", "handle", ",", "", "args", ",", "", "", "kwargs", ")", ":", "if", "entry", ".", "evalue", "<=", ...	32.964286	0.001053
def process_management_config_section(config, management_config): """ Processes the management section from a configuration data dict. :param config: The config reference of the object that will hold the configuration data from the config_data. :param management_config: Management section from a config...	[ "def", "process_management_config_section", "(", "config", ",", "management_config", ")", ":", "if", "'commands'", "in", "management_config", ":", "for", "command", "in", "management_config", "[", "'commands'", "]", ":", "config", ".", "management", "[", "'commands'...	48.2	0.002037
def view(src, mono): """Inspect statistics by TUI view.""" src_type, src_name = src title = get_title(src_name, src_type) viewer, loop = make_viewer(mono) if src_type == 'dump': time = datetime.fromtimestamp(os.path.getmtime(src_name)) with open(src_name, 'rb') as f: prof...	[ "def", "view", "(", "src", ",", "mono", ")", ":", "src_type", ",", "src_name", "=", "src", "title", "=", "get_title", "(", "src_name", ",", "src_type", ")", "viewer", ",", "loop", "=", "make_viewer", "(", "mono", ")", "if", "src_type", "==", "'dump'", ...	40.666667	0.001144
def wave_range(bins, cenwave, npix, round='round'): """Get the wavelength range covered by the given number of pixels centered on the given wavelength. Parameters ---------- bins : ndarray Wavelengths of pixel centers. Must be in the same units as ``cenwave``. cenwave : float ...	[ "def", "wave_range", "(", "bins", ",", "cenwave", ",", "npix", ",", "round", "=", "'round'", ")", ":", "# make sure that the round keyword is valid", "if", "round", "not", "in", "(", "None", ",", "'round'", ",", "'min'", ",", "'max'", ")", ":", "raise", "V...	37.276836	0.001771
def process_utterance(self, utterance, frame_size=400, hop_size=160, sr=None, corpus=None): """ Process the utterance in offline mode, in one go. Args: utterance (Utterance): The utterance to process. frame_size (int): The number of samples per frame. hop...	[ "def", "process_utterance", "(", "self", ",", "utterance", ",", "frame_size", "=", "400", ",", "hop_size", "=", "160", ",", "sr", "=", "None", ",", "corpus", "=", "None", ")", ":", "return", "self", ".", "process_track", "(", "utterance", ".", "track", ...	52.8125	0.00814
def radianceSpectrum(Omegas,AbsorptionCoefficient,Environment={'l':100.,'T':296.}, File=None, Format='%e %e', Wavenumber=None): """ INPUT PARAMETERS: Wavenumber/Omegas: wavenumber grid (required) AbsorptionCoefficient: absorption coefficient on grid (re...	[ "def", "radianceSpectrum", "(", "Omegas", ",", "AbsorptionCoefficient", ",", "Environment", "=", "{", "'l'", ":", "100.", ",", "'T'", ":", "296.", "}", ",", "File", "=", "None", ",", "Format", "=", "'%e %e'", ",", "Wavenumber", "=", "None", ")", ":", "...	43.567568	0.012743
def delete_scope(self, scope): """ Delete a scope. This will delete a scope if the client has the right to do so. Sufficient permissions to delete a scope are a superuser, a user in the `GG:Configurators` group or a user that is the Scope manager of the scope to be deleted. ...	[ "def", "delete_scope", "(", "self", ",", "scope", ")", ":", "assert", "isinstance", "(", "scope", ",", "Scope", ")", ",", "'Scope \"{}\" is not a scope!'", ".", "format", "(", "scope", ".", "name", ")", "response", "=", "self", ".", "_request", "(", "'DELE...	43.3	0.00904
def heatmapf(func, scale=10, boundary=True, cmap=None, ax=None, scientific=False, style='triangular', colorbar=True, permutation=None, vmin=None, vmax=None, cbarlabel=None, cb_kwargs=None): """ Computes func on heatmap partition coordinates and plots heatmap. In other ...	[ "def", "heatmapf", "(", "func", ",", "scale", "=", "10", ",", "boundary", "=", "True", ",", "cmap", "=", "None", ",", "ax", "=", "None", ",", "scientific", "=", "False", ",", "style", "=", "'triangular'", ",", "colorbar", "=", "True", ",", "permutati...	36.509804	0.001569
def cat_files(infiles, outfile): '''Cats all files in list infiles into outfile''' f_out = pyfastaq.utils.open_file_write(outfile) for filename in infiles: if os.path.exists(filename): f_in = pyfastaq.utils.open_file_read(filename) for line in f_in: print(lin...	[ "def", "cat_files", "(", "infiles", ",", "outfile", ")", ":", "f_out", "=", "pyfastaq", ".", "utils", ".", "open_file_write", "(", "outfile", ")", "for", "filename", "in", "infiles", ":", "if", "os", ".", "path", ".", "exists", "(", "filename", ")", ":...	33.583333	0.002415
def created_at_pretty(self, date_format=None): """Return pretty timestamp.""" if date_format: return pretty_timestamp(self.created_at, date_format=date_format) return pretty_timestamp(self.created_at)	[ "def", "created_at_pretty", "(", "self", ",", "date_format", "=", "None", ")", ":", "if", "date_format", ":", "return", "pretty_timestamp", "(", "self", ".", "created_at", ",", "date_format", "=", "date_format", ")", "return", "pretty_timestamp", "(", "self", ...	46.4	0.008475
def tm(seq, dna_conc=50, salt_conc=50, parameters='cloning'): '''Calculate nearest-neighbor melting temperature (Tm). :param seq: Sequence for which to calculate the tm. :type seq: coral.DNA :param dna_conc: DNA concentration in nM. :type dna_conc: float :param salt_conc: Salt concentration in ...	[ "def", "tm", "(", "seq", ",", "dna_conc", "=", "50", ",", "salt_conc", "=", "50", ",", "parameters", "=", "'cloning'", ")", ":", "if", "parameters", "==", "'breslauer'", ":", "params", "=", "tm_params", ".", "BRESLAUER", "elif", "parameters", "==", "'sug...	41.601626	0.000191
def open_this(self, file, how): # type: (str,str) -> Any """ Open file while detecting encoding. Use cached when possible. :param file: :param how: :return: """ # BUG: risky code here, allowing relative if not file.startswith("/"): # raise Typ...	[ "def", "open_this", "(", "self", ",", "file", ",", "how", ")", ":", "# type: (str,str) -> Any", "# BUG: risky code here, allowing relative", "if", "not", "file", ".", "startswith", "(", "\"/\"", ")", ":", "# raise TypeError(\"this isn't absolute! We're siths, ya' know.\")",...	33.516129	0.001871
def build_lv_graph_ria(lvgd, grid_model_params): """Build graph for LV grid of sectors retail/industrial and agricultural Based on structural description of LV grid topology for sectors retail/industrial and agricultural (RIA) branches for these sectors are created and attached to the LV grid's MV-LV s...	[ "def", "build_lv_graph_ria", "(", "lvgd", ",", "grid_model_params", ")", ":", "def", "lv_graph_attach_branch", "(", ")", ":", "\"\"\"Attach a single branch including its equipment (cable dist, loads\n and line segments) to graph of `lv_grid`\n \"\"\"", "# determine maximum ...	38.611374	0.000598
def get_nbytes(dset): """ If the dataset has an attribute 'nbytes', return it. Otherwise get the size of the underlying array. Returns None if the dataset is actually a group. """ if 'nbytes' in dset.attrs: # look if the dataset has an attribute nbytes return dset.attrs['nbytes'] ...	[ "def", "get_nbytes", "(", "dset", ")", ":", "if", "'nbytes'", "in", "dset", ".", "attrs", ":", "# look if the dataset has an attribute nbytes", "return", "dset", ".", "attrs", "[", "'nbytes'", "]", "elif", "hasattr", "(", "dset", ",", "'dtype'", ")", ":", "#...	41.454545	0.002146
def show_weights(estimator, **kwargs): """ Return an explanation of estimator parameters (weights) as an IPython.display.HTML object. Use this function to show classifier weights in IPython. :func:`show_weights` accepts all :func:`eli5.explain_weights` arguments and all :func:`eli5.formatters.h...	[ "def", "show_weights", "(", "estimator", ",", "", "", "kwargs", ")", ":", "format_kwargs", ",", "explain_kwargs", "=", "_split_kwargs", "(", "kwargs", ")", "expl", "=", "explain_weights", "(", "estimator", ",", "", "", "explain_kwargs", ")", "html", "=",...	42.380952	0.000439
def _sprinkle(config_str): ''' Sprinkle with grains of salt, that is convert 'test {id} test {host} ' types of strings :param config_str: The string to be sprinkled :return: The string sprinkled ''' parts = [x for sub in config_str.split('{') for x in sub.split('}')] for i in range(1, le...	[ "def", "_sprinkle", "(", "config_str", ")", ":", "parts", "=", "[", "x", "for", "sub", "in", "config_str", ".", "split", "(", "'{'", ")", "for", "x", "in", "sub", ".", "split", "(", "'}'", ")", "]", "for", "i", "in", "range", "(", "1", ",", "le...	37.454545	0.00237
def get_per_object_threshold(method, image, threshold, mask=None, labels=None, threshold_range_min = None, threshold_range_max = None, **kwargs): """Return a matrix giving threshold per pixel calculated per-object image ...	[ "def", "get_per_object_threshold", "(", "method", ",", "image", ",", "threshold", ",", "mask", "=", "None", ",", "labels", "=", "None", ",", "threshold_range_min", "=", "None", ",", "threshold_range_max", "=", "None", ",", "", "", "kwargs", ")", ":", "if...	44.269231	0.012755
def serialize(self, data, response=None, request=None, format=None): """Serializes the data using a determined serializer. @param[in] data The data to be serialized. @param[in] response The response object to serialize the data to. If this method is invoked ...	[ "def", "serialize", "(", "self", ",", "data", ",", "response", "=", "None", ",", "request", "=", "None", ",", "format", "=", "None", ")", ":", "if", "isinstance", "(", "self", ",", "Resource", ")", ":", "if", "not", "request", ":", "# Ensure we have a ...	41.060241	0.000573
def setup_sfr_obs(self): """setup sfr ASCII observations""" if not self.sfr_obs: return if self.m.sfr is None: self.logger.lraise("no sfr package found...") org_sfr_out_file = os.path.join(self.org_model_ws,"{0}.sfr.out".format(self.m.name)) if not os.pat...	[ "def", "setup_sfr_obs", "(", "self", ")", ":", "if", "not", "self", ".", "sfr_obs", ":", "return", "if", "self", ".", "m", ".", "sfr", "is", "None", ":", "self", ".", "logger", ".", "lraise", "(", "\"no sfr package found...\"", ")", "org_sfr_out_file", "...	47.545455	0.011246
def modification_time(self): """dfdatetime.DateTimeValues: modification time or None if not available.""" if self._stat_info is None: return None timestamp = int(self._stat_info.st_mtime) return dfdatetime_posix_time.PosixTime(timestamp=timestamp)	[ "def", "modification_time", "(", "self", ")", ":", "if", "self", ".", "_stat_info", "is", "None", ":", "return", "None", "timestamp", "=", "int", "(", "self", ".", "_stat_info", ".", "st_mtime", ")", "return", "dfdatetime_posix_time", ".", "PosixTime", "(", ...	37.714286	0.011111
def visit_insert(self, insert_stmt, asfrom=False, **kw): """ used to compile <sql.expression.Insert> expressions. this function wraps insert_from_select statements inside parentheses to be conform with earlier versions of CreateDB. """ self.stack.append( {'...	[ "def", "visit_insert", "(", "self", ",", "insert_stmt", ",", "asfrom", "=", "False", ",", "", "", "kw", ")", ":", "self", ".", "stack", ".", "append", "(", "{", "'correlate_froms'", ":", "set", "(", ")", ",", "\"asfrom_froms\"", ":", "set", "(", ")...	35.886598	0.000559
def _get_dict_from_list(dict_key, list_of_dicts): """Retrieve a specific dict from a list of dicts. Parameters ---------- dict_key : str The (single) key of the dict to be retrieved from the list. list_of_dicts : list The list of dicts to search for the specific dict. Returns ...	[ "def", "_get_dict_from_list", "(", "dict_key", ",", "list_of_dicts", ")", ":", "the_dict", "=", "[", "cur_dict", "for", "cur_dict", "in", "list_of_dicts", "if", "cur_dict", ".", "get", "(", "dict_key", ")", "]", "if", "not", "the_dict", ":", "raise", "ValueE...	30.809524	0.001499
def reference_contexts_for_variant( variant, context_size, transcript_id_whitelist=None): """ variant : varcode.Variant context_size : int Max of nucleotides to include to the left and right of the variant in the context sequence. transcript_id_whitelist : set, ...	[ "def", "reference_contexts_for_variant", "(", "variant", ",", "context_size", ",", "transcript_id_whitelist", "=", "None", ")", ":", "overlapping_transcripts", "=", "reference_transcripts_for_variant", "(", "variant", "=", "variant", ",", "transcript_id_whitelist", "=", "...	36.547619	0.000635
def data_log_likelihood(self, successes, trials, beta): '''Calculates the log-likelihood of a Polya tree bin given the beta values.''' return binom.logpmf(successes, trials, 1.0 / (1 + np.exp(-beta))).sum()	[ "def", "data_log_likelihood", "(", "self", ",", "successes", ",", "trials", ",", "beta", ")", ":", "return", "binom", ".", "logpmf", "(", "successes", ",", "trials", ",", "1.0", "/", "(", "1", "+", "np", ".", "exp", "(", "-", "beta", ")", ")", ")",...	73.333333	0.013514
def list_(pkg=None, dir=None, runas=None, env=None, depth=None): ''' List installed NPM packages. If no directory is specified, this will return the list of globally- installed packages. pkg Limit package listing by name dir The directory whose packages will be listed, or None...	[ "def", "list_", "(", "pkg", "=", "None", ",", "dir", "=", "None", ",", "runas", "=", "None", ",", "env", "=", "None", ",", "depth", "=", "None", ")", ":", "env", "=", "env", "or", "{", "}", "if", "runas", ":", "uid", "=", "salt", ".", "utils"...	26.471429	0.001561
def addChildList(self, cur): """Add a list of node at the end of the child list of the parent merging adjacent TEXT nodes (@cur may be freed) """ if cur is None: cur__o = None else: cur__o = cur._o ret = libxml2mod.xmlAddChildList(self._o, cur__o) if ret is None:raise ...	[ "def", "addChildList", "(", "self", ",", "cur", ")", ":", "if", "cur", "is", "None", ":", "cur__o", "=", "None", "else", ":", "cur__o", "=", "cur", ".", "_o", "ret", "=", "libxml2mod", ".", "xmlAddChildList", "(", "self", ".", "_o", ",", "cur__o", ...	44.888889	0.014563
def variablename(var): """ Returns the string of a variable name. """ s=[tpl[0] for tpl in itertools.ifilter(lambda x: var is x[1], globals().items())] s=s[0].upper() return s	[ "def", "variablename", "(", "var", ")", ":", "s", "=", "[", "tpl", "[", "0", "]", "for", "tpl", "in", "itertools", ".", "ifilter", "(", "lambda", "x", ":", "var", "is", "x", "[", "1", "]", ",", "globals", "(", ")", ".", "items", "(", ")", ")"...	27.571429	0.020101
def revisions(self, path, max_revisions): """ Get the list of revisions. :param path: the path to target. :type path: ``str`` :param max_revisions: the maximum number of revisions. :type max_revisions: ``int`` :return: A list of revisions. :rtype: ``l...	[ "def", "revisions", "(", "self", ",", "path", ",", "max_revisions", ")", ":", "if", "self", ".", "repo", ".", "is_dirty", "(", ")", ":", "raise", "DirtyGitRepositoryError", "(", "self", ".", "repo", ".", "untracked_files", ")", "revisions", "=", "[", "]"...	31.172414	0.002146
def create_logstash(self, kwargs): """ Creates an instance of the Logging Service. """ logstash = predix.admin.logstash.Logging(kwargs) logstash.create() logstash.add_to_manifest(self) logging.info('Install Kibana-Me-Logs application by following GitHub instr...	[ "def", "create_logstash", "(", "self", ",", "", "", "kwargs", ")", ":", "logstash", "=", "predix", ".", "admin", ".", "logstash", ".", "Logging", "(", "", "", "kwargs", ")", "logstash", ".", "create", "(", ")", "logstash", ".", "add_to_manifest", "...	36.5	0.008909
def timeFormat(time_from, time_to=None, prefix="", infix=None): """ Format the times time_from and optionally time_to, e.g. 10am """ retval = "" if time_from != "" and time_from is not None: retval += prefix retval += dateformat.time_format(time_from, "fA").lower() if time_to != ...	[ "def", "timeFormat", "(", "time_from", ",", "time_to", "=", "None", ",", "prefix", "=", "\"\"", ",", "infix", "=", "None", ")", ":", "retval", "=", "\"\"", "if", "time_from", "!=", "\"\"", "and", "time_from", "is", "not", "None", ":", "retval", "+=", ...	41.6875	0.001466
def current_fact_index(self): """Current fact index in the self.facts list.""" facts_ids = [fact.id for fact in self.facts] return facts_ids.index(self.current_fact.id)	[ "def", "current_fact_index", "(", "self", ")", ":", "facts_ids", "=", "[", "fact", ".", "id", "for", "fact", "in", "self", ".", "facts", "]", "return", "facts_ids", ".", "index", "(", "self", ".", "current_fact", ".", "id", ")" ]	47.25	0.010417
def ghmean(nums): """Return geometric-harmonic mean. Iterates between geometric & harmonic means until they converge to a single value (rounded to 12 digits). Cf. https://en.wikipedia.org/wiki/Geometric-harmonic_mean Parameters ---------- nums : list A series of numbers Retur...	[ "def", "ghmean", "(", "nums", ")", ":", "m_g", "=", "gmean", "(", "nums", ")", "m_h", "=", "hmean", "(", "nums", ")", "if", "math", ".", "isnan", "(", "m_g", ")", "or", "math", ".", "isnan", "(", "m_h", ")", ":", "return", "float", "(", "'nan'"...	20.8	0.001148
def auto_update_attrs_from_kwargs(method): """ this decorator will update the attributes of an instance object with all the kwargs of the decorated method, updated with the kwargs of the actual call. This saves you from boring typing: self.xxxx = xxxx self.yyyy = yyyy ... in the d...	[ "def", "auto_update_attrs_from_kwargs", "(", "method", ")", ":", "def", "wrapped", "(", "self", ",", "", "", "kwargs", ")", ":", "# method signature introspection", "argspec", "=", "inspect", ".", "getargspec", "(", "method", ")", "defaults", "=", "argspec", ...	36.36	0.001072
def iou_binary(preds, labels, EMPTY=1., ignore=None, per_image=True): """ IoU for foreground class binary: 1 foreground, 0 background """ if not per_image: preds, labels = (preds,), (labels,) ious = [] for pred, label in zip(preds, labels): intersection = ((label == 1) & (pre...	[ "def", "iou_binary", "(", "preds", ",", "labels", ",", "EMPTY", "=", "1.", ",", "ignore", "=", "None", ",", "per_image", "=", "True", ")", ":", "if", "not", "per_image", ":", "preds", ",", "labels", "=", "(", "preds", ",", ")", ",", "(", "labels", ...	33.388889	0.001618
def _ReadPacket(self): """Read a single data record as a string (without length or checksum). """ len_char = self.ser.read(1) if not len_char: logging.error("Reading from serial port timed out.") return None data_len = ord(len_char) if not data_le...	[ "def", "_ReadPacket", "(", "self", ")", ":", "len_char", "=", "self", ".", "ser", ".", "read", "(", "1", ")", "if", "not", "len_char", ":", "logging", ".", "error", "(", "\"Reading from serial port timed out.\"", ")", "return", "None", "data_len", "=", "or...	37.24	0.002094
def unescape(s): """The reverse function of `escape`. This unescapes all the HTML entities, not only the XML entities inserted by `escape`. :param s: the string to unescape. """ def handle_match(m): name = m.group(1) if name in HTMLBuilder._entities: return unichr(HTMLB...	[ "def", "unescape", "(", "s", ")", ":", "def", "handle_match", "(", "m", ")", ":", "name", "=", "m", ".", "group", "(", "1", ")", "if", "name", "in", "HTMLBuilder", ".", "_entities", ":", "return", "unichr", "(", "HTMLBuilder", ".", "_entities", "[", ...	32.526316	0.001572
def _log_intermediate_failure(self, err, flaky, name): """ Report that the test has failed, but still has reruns left. Then rerun the test. :param err: Information about the test failure (from sys.exc_info()) :type err: `tuple` of `class`, :class:`Excepti...	[ "def", "_log_intermediate_failure", "(", "self", ",", "err", ",", "flaky", ",", "name", ")", ":", "max_runs", "=", "flaky", "[", "FlakyNames", ".", "MAX_RUNS", "]", "runs_left", "=", "max_runs", "-", "flaky", "[", "FlakyNames", ".", "CURRENT_RUNS", "]", "m...	32.36	0.002401
def set_position(self, x, y, width, height): """Set window top-left corner position and size""" SetWindowPos(self._hwnd, None, x, y, width, height, ctypes.c_uint(0))	[ "def", "set_position", "(", "self", ",", "x", ",", "y", ",", "width", ",", "height", ")", ":", "SetWindowPos", "(", "self", ".", "_hwnd", ",", "None", ",", "x", ",", "y", ",", "width", ",", "height", ",", "ctypes", ".", "c_uint", "(", "0", ")", ...	59.666667	0.01105
def run(self): """Start the game loop""" global world self.__is_running = True while(self.__is_running): #Our game loop #Catch our events self.__handle_events() #Update our clock self.__clock.tick(self.preferred_fps) ...	[ "def", "run", "(", "self", ")", ":", "global", "world", "self", ".", "__is_running", "=", "True", "while", "(", "self", ".", "__is_running", ")", ":", "#Our game loop", "#Catch our events", "self", ".", "__handle_events", "(", ")", "#Update our clock", "self",...	31.363636	0.029053
def get_except_handler_name(self, node): """ Helper to get the exception name from an ExceptHandler node in both py2 and py3. """ name = node.name if not name: return None if version_info < (3,): return name.id return name	[ "def", "get_except_handler_name", "(", "self", ",", "node", ")", ":", "name", "=", "node", ".", "name", "if", "not", "name", ":", "return", "None", "if", "version_info", "<", "(", "3", ",", ")", ":", "return", "name", ".", "id", "return", "name" ]	24.416667	0.009868
def read(self, length, timeout): """Read 'length' bytes from this stream transport. Args: length: If not 0, read this many bytes from the stream, otherwise read all available data (at least one byte). timeout: timeouts.PolledTimeout to use for this read operation. Returns: The by...	[ "def", "read", "(", "self", ",", "length", ",", "timeout", ")", ":", "self", ".", "_read_messages_until_true", "(", "lambda", ":", "self", ".", "_buffer_size", "and", "self", ".", "_buffer_size", ">=", "length", ",", "timeout", ")", "with", "self", ".", ...	33.130435	0.008929
def keep_max_priority_effects(effects): """ Given a list of effects, only keep the ones with the maximum priority effect type. Parameters ---------- effects : list of MutationEffect subclasses Returns list of same length or shorter """ priority_values = map(effect_priority, effects...	[ "def", "keep_max_priority_effects", "(", "effects", ")", ":", "priority_values", "=", "map", "(", "effect_priority", ",", "effects", ")", "max_priority", "=", "max", "(", "priority_values", ")", "return", "[", "e", "for", "(", "e", ",", "p", ")", "in", "zi...	30.571429	0.002268
def remove_leaf_names(self): """ Set the name of all leaf nodes in the subtree to None. """ self.visit(lambda n: setattr(n, 'name', None), lambda n: n.is_leaf)	[ "def", "remove_leaf_names", "(", "self", ")", ":", "self", ".", "visit", "(", "lambda", "n", ":", "setattr", "(", "n", ",", "'name'", ",", "None", ")", ",", "lambda", "n", ":", "n", ".", "is_leaf", ")" ]	37.4	0.010471
def init_app(self, app): """ For Flask using the app config """ self.__init__(aws_access_key_id=app.config.get("SES_AWS_ACCESS_KEY"), aws_secret_access_key=app.config.get("SES_AWS_SECRET_KEY"), region=app.config.get("SES_REGION", "us-east-1"), ...	[ "def", "init_app", "(", "self", ",", "app", ")", ":", "self", ".", "__init__", "(", "aws_access_key_id", "=", "app", ".", "config", ".", "get", "(", "\"SES_AWS_ACCESS_KEY\"", ")", ",", "aws_secret_access_key", "=", "app", ".", "config", ".", "get", "(", ...	50.25	0.008143
def check_valence(self): """ check valences of all atoms :return: list of invalid atoms """ return [x for x, atom in self.atoms() if not atom.check_valence(self.environment(x))]	[ "def", "check_valence", "(", "self", ")", ":", "return", "[", "x", "for", "x", ",", "atom", "in", "self", ".", "atoms", "(", ")", "if", "not", "atom", ".", "check_valence", "(", "self", ".", "environment", "(", "x", ")", ")", "]" ]	30.285714	0.013761
def create(args): """ Create a model from wavelength and flux files. """ from sick.models.create import create return create(os.path.join(args.output_dir, args.model_name), args.grid_points_filename, args.wavelength_filenames, clobber=args.clobber)	[ "def", "create", "(", "args", ")", ":", "from", "sick", ".", "models", ".", "create", "import", "create", "return", "create", "(", "os", ".", "path", ".", "join", "(", "args", ".", "output_dir", ",", "args", ".", "model_name", ")", ",", "args", ".", ...	38.857143	0.014388
def sub_state_by_gene_name(self, *gene_names: str) -> 'State': """ Create a sub state with only the gene passed in arguments. Example ------- >>> state.sub_state_by_gene_name('operon') {operon: 2} >>> state.sub_state_by_gene_name('mucuB') {mucuB: 0} ...	[ "def", "sub_state_by_gene_name", "(", "self", ",", "*", "gene_names", ":", "str", ")", "->", "'State'", ":", "return", "State", "(", "{", "gene", ":", "state", "for", "gene", ",", "state", "in", "self", ".", "items", "(", ")", "if", "gene", ".", "nam...	29.857143	0.009281
def _equaBreaks(self, orbit_index_period=24.): """Determine where breaks in an equatorial satellite orbit occur. Looks for negative gradients in local time (or longitude) as well as breaks in UT. Parameters ---------- orbit_index_period : float The change in...	[ "def", "_equaBreaks", "(", "self", ",", "orbit_index_period", "=", "24.", ")", ":", "if", "self", ".", "orbit_index", "is", "None", ":", "raise", "ValueError", "(", "'Orbit properties must be defined at '", "+", "'pysat.Instrument object instantiation.'", "+", "'See I...	44.3	0.001019
def get_hpkp_pin(cls, certificate: cryptography.x509.Certificate) -> str: """Generate the HTTP Public Key Pinning hash (RFC 7469) for the given certificate. """ return b64encode(cls.get_public_key_sha256(certificate)).decode('utf-8')	[ "def", "get_hpkp_pin", "(", "cls", ",", "certificate", ":", "cryptography", ".", "x509", ".", "Certificate", ")", "->", "str", ":", "return", "b64encode", "(", "cls", ".", "get_public_key_sha256", "(", "certificate", ")", ")", ".", "decode", "(", "'utf-8'", ...	63.5	0.015564
def array_scanlines_interlace(self, pixels): """ Generator for interlaced scanlines from an array. `pixels` is the full source image as a single array of values. The generator yields each scanline of the reduced passes in turn, each scanline being a sequence of values. ""...	[ "def", "array_scanlines_interlace", "(", "self", ",", "pixels", ")", ":", "# http://www.w3.org/TR/PNG/#8InterlaceMethods", "# Array type.", "fmt", "=", "'BH'", "[", "self", ".", "bitdepth", ">", "8", "]", "# Value per row", "vpr", "=", "self", ".", "width", "*", ...	43.2	0.001132
def cli(ctx, organism_id, common_name, directory, blatdb="", species="", genus="", public=False): """Update an organism Output: a dictionary with information about the new organism """ return ctx.gi.organisms.update_organism(organism_id, common_name, directory, blatdb=blatdb, species=species, genus=ge...	[ "def", "cli", "(", "ctx", ",", "organism_id", ",", "common_name", ",", "directory", ",", "blatdb", "=", "\"\"", ",", "species", "=", "\"\"", ",", "genus", "=", "\"\"", ",", "public", "=", "False", ")", ":", "return", "ctx", ".", "gi", ".", "organisms...	41.5	0.00885
def file_follow_durable( path, min_dump_interval=10, xattr_name='user.collectd.logtail.pos', xattr_update=True, **follow_kwz ): '''Records log position into xattrs after reading line every min_dump_interval seconds. Checksum of the last line at the position is also recorded (so line itself don't have to ...	[ "def", "file_follow_durable", "(", "path", ",", "min_dump_interval", "=", "10", ",", "xattr_name", "=", "'user.collectd.logtail.pos'", ",", "xattr_update", "=", "True", ",", "", "", "follow_kwz", ")", ":", "from", "xattr", "import", "xattr", "from", "io", "i...	31.568966	0.034958
def evaluate(self): """ Converts the current expression into a single matcher, applying coordination operators to operands according to their binding rules """ # Apply Shunting Yard algorithm to convert the infix expression # into Reverse Polish Notation. Since we have a ver...	[ "def", "evaluate", "(", "self", ")", ":", "# Apply Shunting Yard algorithm to convert the infix expression", "# into Reverse Polish Notation. Since we have a very limited", "# set of operators and binding rules, the implementation becomes", "# really simple. The expression is formed of hamcrest ma...	36.789474	0.001858
def find(self, name, required): """ Finds all matching dependencies by their name. :param name: the dependency name to locate. :param required: true to raise an exception when no dependencies are found. :return: a list of found dependencies """ if name == None:...	[ "def", "find", "(", "self", ",", "name", ",", "required", ")", ":", "if", "name", "==", "None", ":", "raise", "Exception", "(", "\"Name cannot be null\"", ")", "locator", "=", "self", ".", "_locate", "(", "name", ")", "if", "locator", "==", "None", ":"...	29.65	0.011438
def uncompress_file(input_file_name, file_extension, dest_dir): """ Uncompress gz and bz2 files """ if file_extension.lower() not in ('.gz', '.bz2'): raise NotImplementedError("Received {} format. Only gz and bz2 " "files can currently be uncompressed." ...	[ "def", "uncompress_file", "(", "input_file_name", ",", "file_extension", ",", "dest_dir", ")", ":", "if", "file_extension", ".", "lower", "(", ")", "not", "in", "(", "'.gz'", ",", "'.bz2'", ")", ":", "raise", "NotImplementedError", "(", "\"Received {} format. On...	43.777778	0.001242
def calc_rho_and_rho_bar_squared(final_log_likelihood, null_log_likelihood, num_est_parameters): """ Calculates McFadden's rho-squared and rho-bar squared for the given model. Parameters ---------- final_log_likelihood : float. ...	[ "def", "calc_rho_and_rho_bar_squared", "(", "final_log_likelihood", ",", "null_log_likelihood", ",", "num_est_parameters", ")", ":", "rho_squared", "=", "1.0", "-", "final_log_likelihood", "/", "null_log_likelihood", "rho_bar_squared", "=", "1.0", "-", "(", "(", "final_...	37.851852	0.000954
def _params_type(self, method_name, instance): """ Check to see if this is a legacy method or shiny new one legacy update method: def update(self, i3s_output_list, i3s_config): ... new update method: def update(self): ... ...	[ "def", "_params_type", "(", "self", ",", "method_name", ",", "instance", ")", ":", "method", "=", "getattr", "(", "instance", ",", "method_name", ",", "None", ")", "if", "not", "method", ":", "return", "False", "# Check the parameters we simply count the number of...	30.903226	0.002024
def _calc(self, x, y): """ List based implementation of binary tree algorithm for concordance measure after :cite:`Christensen2005`. """ x = np.array(x) y = np.array(y) n = len(y) perm = list(range(n)) perm.sort(key=lambda a: (x[a], y[a])) ...	[ "def", "_calc", "(", "self", ",", "x", ",", "y", ")", ":", "x", "=", "np", ".", "array", "(", "x", ")", "y", "=", "np", ".", "array", "(", "y", ")", "n", "=", "len", "(", "y", ")", "perm", "=", "list", "(", "range", "(", "n", ")", ")", ...	31.593407	0.000675
def namedb_update_must_equal( rec, change_fields ): """ Generate the set of fields that must stay the same across an update. """ must_equal = [] if len(change_fields) != 0: given = rec.keys() for k in given: if k not in change_fields: must_equal.appen...	[ "def", "namedb_update_must_equal", "(", "rec", ",", "change_fields", ")", ":", "must_equal", "=", "[", "]", "if", "len", "(", "change_fields", ")", "!=", "0", ":", "given", "=", "rec", ".", "keys", "(", ")", "for", "k", "in", "given", ":", "if", "k",...	25.769231	0.011527
def _set_choices(self, value): """ Also update the widget's choices. """ super(LazyChoicesMixin, self)._set_choices(value) self.widget.choices = value	[ "def", "_set_choices", "(", "self", ",", "value", ")", ":", "super", "(", "LazyChoicesMixin", ",", "self", ")", ".", "_set_choices", "(", "value", ")", "self", ".", "widget", ".", "choices", "=", "value" ]	30.833333	0.010526
def schema_validate(instance, schema, exc_class, prefix, *kwargs): """ Schema validation helper. Performs JSONSchema validation. If a schema validation error is encountered, an exception of the designated class is raised with the validation error message appropriately simplified and passed as th...	[ "def", "schema_validate", "(", "instance", ",", "schema", ",", "exc_class", ",", "", "prefix", ",", "", "*", "kwargs", ")", ":", "try", ":", "# Do the validation", "jsonschema", ".", "validate", "(", "instance", ",", "schema", ")", "except", "jsonschema", ...	41.125	0.000742
def read_struct_file(struct_data): """Interpret a struct file defining the location of variables in memory. Parameters ---------- struct_data : :py:class:`bytes` String of :py:class:`bytes` containing data to interpret as the struct definition. Returns ------- {struct_name:...	[ "def", "read_struct_file", "(", "struct_data", ")", ":", "# Holders for all structs", "structs", "=", "dict", "(", ")", "# Holders for the current struct", "name", "=", "None", "# Iterate over every line in the file", "for", "i", ",", "l", "in", "enumerate", "(", "str...	36.554217	0.000321
def find_command(self, argv): """Given an argument list, find a command and return the processor and any remaining arguments. """ search_args = argv[:] name = '' while search_args: if search_args[0].startswith('-'): name = '%s %s' % (name, sear...	[ "def", "find_command", "(", "self", ",", "argv", ")", ":", "search_args", "=", "argv", "[", ":", "]", "name", "=", "''", "while", "search_args", ":", "if", "search_args", "[", "0", "]", ".", "startswith", "(", "'-'", ")", ":", "name", "=", "'%s %s'",...	44.37037	0.001634
def xmoe2_dense(sz): """Series of architectural experiments on language modeling. Larger models than the ones above. All models are trained on sequences of 1024 tokens. We assume infinite training data, so no dropout necessary. We process 2^36 tokens in training = 524288 steps at batch size 128 TODO(noa...	[ "def", "xmoe2_dense", "(", "sz", ")", ":", "hparams", "=", "mtf_transformer", ".", "mtf_transformer_paper_lm", "(", "sz", ")", "hparams", ".", "attention_dropout", "=", "0.0", "hparams", ".", "relu_dropout", "=", "0.0", "hparams", ".", "layer_prepostprocess_dropou...	31.027778	0.011285
def auto_model_name_recognize(model_name): """ 自动将 site-user 识别成 SiteUser :param model_name: :return: """ name_list = model_name.split('-') return ''.join(['%s%s' % (name[0].upper(), name[1:]) for name in name_list])	[ "def", "auto_model_name_recognize", "(", "model_name", ")", ":", "name_list", "=", "model_name", ".", "split", "(", "'-'", ")", "return", "''", ".", "join", "(", "[", "'%s%s'", "%", "(", "name", "[", "0", "]", ".", "upper", "(", ")", ",", "name", "["...	29.625	0.008197
def get_version(self): """Get blink(1) firmware version """ if ( self.dev == None ): return '' buf = [REPORT_ID, ord('v'), 0, 0, 0, 0, 0, 0, 0] self.write(buf) time.sleep(.05) version_raw = self.read() version = (version_raw[3] - ord('0')) * 100 + (version...	[ "def", "get_version", "(", "self", ")", ":", "if", "(", "self", ".", "dev", "==", "None", ")", ":", "return", "''", "buf", "=", "[", "REPORT_ID", ",", "ord", "(", "'v'", ")", ",", "0", ",", "0", ",", "0", ",", "0", ",", "0", ",", "0", ",", ...	35.8	0.019074
def assign_bus_results(grid, bus_data): """ Write results obtained from PF to graph Parameters ---------- grid: ding0.network bus_data: pandas.DataFrame DataFrame containing voltage levels obtained from PF analysis """ # iterate of nodes and assign voltage obtained from power f...	[ "def", "assign_bus_results", "(", "grid", ",", "bus_data", ")", ":", "# iterate of nodes and assign voltage obtained from power flow analysis", "for", "node", "in", "grid", ".", "_graph", ".", "nodes", "(", ")", ":", "# check if node is connected to graph", "if", "(", "...	42.148148	0.000859
def simxSetUISlider(clientID, uiHandle, uiButtonID, position, operationMode): ''' Please have a look at the function description/documentation in the V-REP user manual ''' return c_SetUISlider(clientID, uiHandle, uiButtonID, position, operationMode)	[ "def", "simxSetUISlider", "(", "clientID", ",", "uiHandle", ",", "uiButtonID", ",", "position", ",", "operationMode", ")", ":", "return", "c_SetUISlider", "(", "clientID", ",", "uiHandle", ",", "uiButtonID", ",", "position", ",", "operationMode", ")" ]	43.5	0.011278
def _save(self, name, content): """ Saves only when a file with a name and a content is not already uploaded to Cloudinary. """ name = self.clean_name(name) # to change to UNIX style path on windows if necessary if not self._exists_with_etag(name, content): content.s...	[ "def", "_save", "(", "self", ",", "name", ",", "content", ")", ":", "name", "=", "self", ".", "clean_name", "(", "name", ")", "# to change to UNIX style path on windows if necessary", "if", "not", "self", ".", "_exists_with_etag", "(", "name", ",", "content", ...	47.777778	0.009132
def query(self, body, params=None): """ `<Execute SQL>`_ :arg body: Use the `query` element to start a query. Use the `cursor` element to continue a query. :arg format: a short version of the Accept header, e.g. json, yaml """ if body in SKIP_IN_PATH: ...	[ "def", "query", "(", "self", ",", "body", ",", "params", "=", "None", ")", ":", "if", "body", "in", "SKIP_IN_PATH", ":", "raise", "ValueError", "(", "\"Empty value passed for a required argument 'body'.\"", ")", "return", "self", ".", "transport", ".", "perform_...	43.090909	0.008264
def music_info(songid): """ Get music info from baidu music api """ if isinstance(songid, list): songid = ','.join(songid) data = { "hq": 1, "songIds": songid } res = requests.post(MUSIC_INFO_URL, data=data) info = res.json() music_data = info["data"] son...	[ "def", "music_info", "(", "songid", ")", ":", "if", "isinstance", "(", "songid", ",", "list", ")", ":", "songid", "=", "','", ".", "join", "(", "songid", ")", "data", "=", "{", "\"hq\"", ":", "1", ",", "\"songIds\"", ":", "songid", "}", "res", "=",...	25.6	0.001506
def potinf(self, x, y, aq=None): '''Can be called with only one x,y value''' if aq is None: aq = self.model.aq.find_aquifer_data(x, y) rv = np.zeros((self.nparam, aq.naq)) if aq == self.aq: pot = np.zeros(aq.naq) pot[:] = self.bessel.potbeslsho(float(x), float(y),...	[ "def", "potinf", "(", "self", ",", "x", ",", "y", ",", "aq", "=", "None", ")", ":", "if", "aq", "is", "None", ":", "aq", "=", "self", ".", "model", ".", "aq", ".", "find_aquifer_data", "(", "x", ",", "y", ")", "rv", "=", "np", ".", "zeros", ...	47.1	0.008333
def find_in_history(self, tocursor, start_idx, backward): """Find text 'tocursor' in history, from index 'start_idx'""" if start_idx is None: start_idx = len(self.history) # Finding text in history step = -1 if backward else 1 idx = start_idx if len(toc...	[ "def", "find_in_history", "(", "self", ",", "tocursor", ",", "start_idx", ",", "backward", ")", ":", "if", "start_idx", "is", "None", ":", "start_idx", "=", "len", "(", "self", ".", "history", ")", "# Finding text in history\r", "step", "=", "-", "1", "if"...	41.26087	0.00206
def clinsig_query(self, query, mongo_query): """ Add clinsig filter values to the mongo query object Args: query(dict): a dictionary of query filters specified by the users mongo_query(dict): the query that is going to be submitted to the database Return...	[ "def", "clinsig_query", "(", "self", ",", "query", ",", "mongo_query", ")", ":", "LOG", ".", "debug", "(", "'clinsig is a query parameter'", ")", "trusted_revision_level", "=", "[", "'mult'", ",", "'single'", ",", "'exp'", ",", "'guideline'", "]", "rank", "=",...	39.206349	0.011848
def __select_text_under_cursor_blocks(self, cursor): """ Selects the document text under cursor blocks. :param cursor: Cursor. :type cursor: QTextCursor """ start_block = self.document().findBlock(cursor.selectionStart()).firstLineNumber() end_block = self.docum...	[ "def", "__select_text_under_cursor_blocks", "(", "self", ",", "cursor", ")", ":", "start_block", "=", "self", ".", "document", "(", ")", ".", "findBlock", "(", "cursor", ".", "selectionStart", "(", ")", ")", ".", "firstLineNumber", "(", ")", "end_block", "="...	50	0.008415
def data_to_uuid(data): """Convert an array of binary data to the iBeacon uuid format.""" string = data_to_hexstring(data) return string[0:8]+'-'+string[8:12]+'-'+string[12:16]+'-'+string[16:20]+'-'+string[20:32]	[ "def", "data_to_uuid", "(", "data", ")", ":", "string", "=", "data_to_hexstring", "(", "data", ")", "return", "string", "[", "0", ":", "8", "]", "+", "'-'", "+", "string", "[", "8", ":", "12", "]", "+", "'-'", "+", "string", "[", "12", ":", "16",...	55.25	0.008929
def hash_stream(fileobj, hasher=None, blocksize=65536): """Read from fileobj stream, return hash of its contents. Args: fileobj: File-like object with read() hasher: Hash object such as hashlib.sha1(). Defaults to sha1. blocksize: Read from fileobj this many bytes at a time. """ hashe...	[ "def", "hash_stream", "(", "fileobj", ",", "hasher", "=", "None", ",", "blocksize", "=", "65536", ")", ":", "hasher", "=", "hasher", "or", "hashlib", ".", "sha1", "(", ")", "buf", "=", "fileobj", ".", "read", "(", "blocksize", ")", "while", "buf", ":...	33.357143	0.002083
def run(self, model_id, name, arguments={}, properties=None): """Create a new model run with given name, arguments, and properties. Parameters ---------- model_id : string Unique model identifier name : string User-defined name for experiment argum...	[ "def", "run", "(", "self", ",", "model_id", ",", "name", ",", "arguments", "=", "{", "}", ",", "properties", "=", "None", ")", ":", "return", "self", ".", "sco", ".", "experiments_predictions_create", "(", "model_id", ",", "name", ",", "self", ".", "li...	33.36	0.002331
def addCorpusId(self, value): '''Adds SourceId to External_Info ''' if isinstance(value, Corpus_Id): self.corpus_ids.append(value) else: raise (TypeError, 'source_id Type should be Source_Id, not %s' % type(source_id))	[ "def", "addCorpusId", "(", "self", ",", "value", ")", ":", "if", "isinstance", "(", "value", ",", "Corpus_Id", ")", ":", "self", ".", "corpus_ids", ".", "append", "(", "value", ")", "else", ":", "raise", "(", "TypeError", ",", "'source_id Type should be So...	35.75	0.010239
def remove(name=None, pkgs=None, **kwargs): ''' Remove a package and all its dependencies which are not in use by other packages. name The name of the package to be deleted. Multiple Package Options: pkgs A list of packages to delete. Must be passed as a python list. The ...	[ "def", "remove", "(", "name", "=", "None", ",", "pkgs", "=", "None", ",", "", "", "kwargs", ")", ":", "try", ":", "pkg_params", "=", "__salt__", "[", "'pkg_resource.parse_targets'", "]", "(", "name", ",", "pkgs", ")", "[", "0", "]", "except", "Mini...	26.380952	0.00087
def select(*args): """Select specific columns from DataFrame. Output will be DplyFrame type. Order of columns will be the same as input into select. >>> diamonds >> select(X.color, X.carat) >> head(3) Out: color carat 0 E 0.23 1 E 0.21 2 E 0.23 Grouping variables are implied...	[ "def", "select", "(", "*", "args", ")", ":", "def", "select_columns", "(", "df", ",", "args", ")", ":", "columns", "=", "[", "column", ".", "_name", "for", "column", "in", "args", "]", "if", "df", ".", "_grouped_on", ":", "for", "col", "in", "df", ...	30.366667	0.009574
def _filter_unique_identities(uidentities, matcher): """Filter a set of unique identities. This function will use the `matcher` to generate a list of `FilteredIdentity` objects. It will return a tuple with the list of filtered objects, the unique identities not filtered and a table mapping uuids wi...	[ "def", "_filter_unique_identities", "(", "uidentities", ",", "matcher", ")", ":", "filtered", "=", "[", "]", "no_filtered", "=", "[", "]", "uuids", "=", "{", "}", "for", "uidentity", "in", "uidentities", ":", "n", "=", "len", "(", "filtered", ")", "filte...	29.043478	0.001449
def get_tasker2_slabs(self, tol=0.01, same_species_only=True): """ Get a list of slabs that have been Tasker 2 corrected. Args: tol (float): Tolerance to determine if atoms are within same plane. This is a fractional tolerance, not an absolute one. same_s...	[ "def", "get_tasker2_slabs", "(", "self", ",", "tol", "=", "0.01", ",", "same_species_only", "=", "True", ")", ":", "sites", "=", "list", "(", "self", ".", "sites", ")", "slabs", "=", "[", "]", "sortedcsites", "=", "sorted", "(", "sites", ",", "key", ...	44.580645	0.000708
def prior_model_name_prior_tuples_dict(self): """ Returns ------- class_priors_dict: {String: [Prior]} A dictionary mapping_matrix the names of priors to lists of associated priors """ return {name: list(prior_model.prior_tuples) for name, prior_model in self....	[ "def", "prior_model_name_prior_tuples_dict", "(", "self", ")", ":", "return", "{", "name", ":", "list", "(", "prior_model", ".", "prior_tuples", ")", "for", "name", ",", "prior_model", "in", "self", ".", "prior_model_tuples", "}" ]	41.5	0.011799
def handle_control(self, req, worker_id, req_info): """ Handles a control_request received from a worker. Returns: string or dict: response 'stop' - the worker should quit 'wait' - wait for 1 second 'eval' - evaluate on valid and test set to start...	[ "def", "handle_control", "(", "self", ",", "req", ",", "worker_id", ",", "req_info", ")", ":", "if", "self", ".", "start_time", "is", "None", ":", "self", ".", "start_time", "=", "time", ".", "time", "(", ")", "response", "=", "\"\"", "if", "req", "=...	46.040816	0.002459
def proc_image(self, tokens): """ Returns the components of an image. """ print "IMAGE:", tokens, tokens.asList(), tokens.keys() raise NotImplementedError	[ "def", "proc_image", "(", "self", ",", "tokens", ")", ":", "print", "\"IMAGE:\"", ",", "tokens", ",", "tokens", ".", "asList", "(", ")", ",", "tokens", ".", "keys", "(", ")", "raise", "NotImplementedError" ]	29.166667	0.011111

def _pad(arr, n, dir='right'): """Pad an array with zeros along the first axis. Parameters ---------- n : int Size of the returned array in the first axis. dir : str Direction of the padding. Must be one 'left' or 'right'. """ assert dir in ('left', 'right') if n < 0: ...

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def plot(self): """ return a toyplot barplot of the results table. """ if self.results_table == None: return "no results found" else: bb = self.results_table.sort_values( by=["ABCD", "ACBD"], ascending=[False, True], ...

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def create_snapshot(self, description='', compute_total=False): """ Collect current per instance statistics and saves total amount of memory associated with the Python process. If `compute_total` is `True`, the total consumption of all objects known to *asizeof* is computed. The...

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def objLon(ID, chart): """ Returns the longitude of an object. """ if ID.startswith('$R'): # Return Ruler ID = ID[2:] obj = chart.get(ID) rulerID = essential.ruler(obj.sign) ruler = chart.getObject(rulerID) return ruler.lon elif ID.startswith('Pars'): ...

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def free_functions( self, name=None, function=None, return_type=None, arg_types=None, header_dir=None, header_file=None, recursive=None, allow_empty=None): """ Returns a set of free function decla...

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def split_expression_by_depth(where, schema, output=None, var_to_depth=None): """ :param where: EXPRESSION TO INSPECT :param schema: THE SCHEMA :param output: :param var_to_depth: MAP FROM EACH VARIABLE NAME TO THE DEPTH :return: """ """ It is unfortunate that ES can not handle expre...

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def missing_inds(x, format_data=True): """ Returns indices of missing data This function is useful to identify rows of your array that contain missing data or nans. The returned indices can be used to remove the rows with missing data, or label the missing data points that are interpolated usi...

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def get_orders(self, product_id=None, status=None, **kwargs): """ List your current open orders. This method returns a generator which may make multiple HTTP requests while iterating through it. Only open or un-settled orders are returned. As soon as an order is no longer open ...

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def crypto_sign_ed25519_sk_to_curve25519(secret_key_bytes): """ Converts a secret Ed25519 key (encoded as bytes ``secret_key_bytes``) to a secret Curve25519 key as bytes. Raises a ValueError if ``secret_key_bytes``is not of length ``crypto_sign_SECRETKEYBYTES`` :param secret_key_bytes: bytes ...

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def pvariance(data, mu=None): """Return the population variance of ``data``. data should be an iterable of Real-valued numbers, with at least one value. The optional argument mu, if given, should be the mean of the data. If it is missing or None, the mean is automatically calculated. Use this func...

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def target_to_ipv4_short(target): """ Attempt to return a IPv4 short range list from a target string. """ splitted = target.split('-') if len(splitted) != 2: return None try: start_packed = inet_pton(socket.AF_INET, splitted[0]) end_value = int(splitted[1]) except (socket.er...

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def tostream(func, module_name=None): """ Decorator to convert the function output into a Stream. Useful for generator functions. Note ---- Always use the ``module_name`` input when "decorating" a function that was defined in other module. """ @wraps(func) def new_func(*args, **kwargs): return...

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def register(classname, cls): """Add a class to the registry of serializer classes. When a class is registered, an entry for both its classname and its full, module-qualified path are added to the registry. Example: :: class MyClass: pass register('MyClass', MyClass) ...

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def mtime(self): """ Get most recent modify time in timestamp. """ try: return self._stat.st_mtime except: # pragma: no cover self._stat = self.stat() return self.mtime

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def b6_evalue_filter(handle, e_value, *args, **kwargs): """Yields lines from handle with E-value less than or equal to e_value Args: handle (file): B6/M8 file handle, can be any iterator so long as it it returns subsequent "lines" of a B6/M8 entry e_value (float): max E-value to re...

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def process_management_config_section(config, management_config): """ Processes the management section from a configuration data dict. :param config: The config reference of the object that will hold the configuration data from the config_data. :param management_config: Management section from a config...

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def view(src, mono): """Inspect statistics by TUI view.""" src_type, src_name = src title = get_title(src_name, src_type) viewer, loop = make_viewer(mono) if src_type == 'dump': time = datetime.fromtimestamp(os.path.getmtime(src_name)) with open(src_name, 'rb') as f: prof...

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def wave_range(bins, cenwave, npix, round='round'): """Get the wavelength range covered by the given number of pixels centered on the given wavelength. Parameters ---------- bins : ndarray Wavelengths of pixel centers. Must be in the same units as ``cenwave``. cenwave : float ...

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def process_utterance(self, utterance, frame_size=400, hop_size=160, sr=None, corpus=None): """ Process the utterance in **offline** mode, in one go. Args: utterance (Utterance): The utterance to process. frame_size (int): The number of samples per frame. hop...

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def radianceSpectrum(Omegas,AbsorptionCoefficient,Environment={'l':100.,'T':296.}, File=None, Format='%e %e', Wavenumber=None): """ INPUT PARAMETERS: Wavenumber/Omegas: wavenumber grid (required) AbsorptionCoefficient: absorption coefficient on grid (re...

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def delete_scope(self, scope): """ Delete a scope. This will delete a scope if the client has the right to do so. Sufficient permissions to delete a scope are a superuser, a user in the `GG:Configurators` group or a user that is the Scope manager of the scope to be deleted. ...

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def heatmapf(func, scale=10, boundary=True, cmap=None, ax=None, scientific=False, style='triangular', colorbar=True, permutation=None, vmin=None, vmax=None, cbarlabel=None, cb_kwargs=None): """ Computes func on heatmap partition coordinates and plots heatmap. In other ...

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def cat_files(infiles, outfile): '''Cats all files in list infiles into outfile''' f_out = pyfastaq.utils.open_file_write(outfile) for filename in infiles: if os.path.exists(filename): f_in = pyfastaq.utils.open_file_read(filename) for line in f_in: print(lin...

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def created_at_pretty(self, date_format=None): """Return pretty timestamp.""" if date_format: return pretty_timestamp(self.created_at, date_format=date_format) return pretty_timestamp(self.created_at)

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def tm(seq, dna_conc=50, salt_conc=50, parameters='cloning'): '''Calculate nearest-neighbor melting temperature (Tm). :param seq: Sequence for which to calculate the tm. :type seq: coral.DNA :param dna_conc: DNA concentration in nM. :type dna_conc: float :param salt_conc: Salt concentration in ...

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def open_this(self, file, how): # type: (str,str) -> Any """ Open file while detecting encoding. Use cached when possible. :param file: :param how: :return: """ # BUG: risky code here, allowing relative if not file.startswith("/"): # raise Typ...

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def build_lv_graph_ria(lvgd, grid_model_params): """Build graph for LV grid of sectors retail/industrial and agricultural Based on structural description of LV grid topology for sectors retail/industrial and agricultural (RIA) branches for these sectors are created and attached to the LV grid's MV-LV s...

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def get_nbytes(dset): """ If the dataset has an attribute 'nbytes', return it. Otherwise get the size of the underlying array. Returns None if the dataset is actually a group. """ if 'nbytes' in dset.attrs: # look if the dataset has an attribute nbytes return dset.attrs['nbytes'] ...

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def show_weights(estimator, **kwargs): """ Return an explanation of estimator parameters (weights) as an IPython.display.HTML object. Use this function to show classifier weights in IPython. :func:`show_weights` accepts all :func:`eli5.explain_weights` arguments and all :func:`eli5.formatters.h...

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def _sprinkle(config_str): ''' Sprinkle with grains of salt, that is convert 'test {id} test {host} ' types of strings :param config_str: The string to be sprinkled :return: The string sprinkled ''' parts = [x for sub in config_str.split('{') for x in sub.split('}')] for i in range(1, le...

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def get_per_object_threshold(method, image, threshold, mask=None, labels=None, threshold_range_min = None, threshold_range_max = None, **kwargs): """Return a matrix giving threshold per pixel calculated per-object image ...

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def serialize(self, data, response=None, request=None, format=None): """Serializes the data using a determined serializer. @param[in] data The data to be serialized. @param[in] response The response object to serialize the data to. If this method is invoked ...

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def setup_sfr_obs(self): """setup sfr ASCII observations""" if not self.sfr_obs: return if self.m.sfr is None: self.logger.lraise("no sfr package found...") org_sfr_out_file = os.path.join(self.org_model_ws,"{0}.sfr.out".format(self.m.name)) if not os.pat...

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def modification_time(self): """dfdatetime.DateTimeValues: modification time or None if not available.""" if self._stat_info is None: return None timestamp = int(self._stat_info.st_mtime) return dfdatetime_posix_time.PosixTime(timestamp=timestamp)

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def visit_insert(self, insert_stmt, asfrom=False, **kw): """ used to compile <sql.expression.Insert> expressions. this function wraps insert_from_select statements inside parentheses to be conform with earlier versions of CreateDB. """ self.stack.append( {'...

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def _get_dict_from_list(dict_key, list_of_dicts): """Retrieve a specific dict from a list of dicts. Parameters ---------- dict_key : str The (single) key of the dict to be retrieved from the list. list_of_dicts : list The list of dicts to search for the specific dict. Returns ...

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def reference_contexts_for_variant( variant, context_size, transcript_id_whitelist=None): """ variant : varcode.Variant context_size : int Max of nucleotides to include to the left and right of the variant in the context sequence. transcript_id_whitelist : set, ...

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def data_log_likelihood(self, successes, trials, beta): '''Calculates the log-likelihood of a Polya tree bin given the beta values.''' return binom.logpmf(successes, trials, 1.0 / (1 + np.exp(-beta))).sum()

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def list_(pkg=None, dir=None, runas=None, env=None, depth=None): ''' List installed NPM packages. If no directory is specified, this will return the list of globally- installed packages. pkg Limit package listing by name dir The directory whose packages will be listed, or None...

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def addChildList(self, cur): """Add a list of node at the end of the child list of the parent merging adjacent TEXT nodes (@cur may be freed) """ if cur is None: cur__o = None else: cur__o = cur._o ret = libxml2mod.xmlAddChildList(self._o, cur__o) if ret is None:raise ...

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def variablename(var): """ Returns the string of a variable name. """ s=[tpl[0] for tpl in itertools.ifilter(lambda x: var is x[1], globals().items())] s=s[0].upper() return s

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def revisions(self, path, max_revisions): """ Get the list of revisions. :param path: the path to target. :type path: ``str`` :param max_revisions: the maximum number of revisions. :type max_revisions: ``int`` :return: A list of revisions. :rtype: ``l...

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def create_logstash(self, **kwargs): """ Creates an instance of the Logging Service. """ logstash = predix.admin.logstash.Logging(**kwargs) logstash.create() logstash.add_to_manifest(self) logging.info('Install Kibana-Me-Logs application by following GitHub instr...

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def timeFormat(time_from, time_to=None, prefix="", infix=None): """ Format the times time_from and optionally time_to, e.g. 10am """ retval = "" if time_from != "" and time_from is not None: retval += prefix retval += dateformat.time_format(time_from, "fA").lower() if time_to != ...

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def current_fact_index(self): """Current fact index in the self.facts list.""" facts_ids = [fact.id for fact in self.facts] return facts_ids.index(self.current_fact.id)

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def ghmean(nums): """Return geometric-harmonic mean. Iterates between geometric & harmonic means until they converge to a single value (rounded to 12 digits). Cf. https://en.wikipedia.org/wiki/Geometric-harmonic_mean Parameters ---------- nums : list A series of numbers Retur...

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def auto_update_attrs_from_kwargs(method): """ this decorator will update the attributes of an instance object with all the kwargs of the decorated method, updated with the kwargs of the actual call. This saves you from boring typing: self.xxxx = xxxx self.yyyy = yyyy ... in the d...

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def iou_binary(preds, labels, EMPTY=1., ignore=None, per_image=True): """ IoU for foreground class binary: 1 foreground, 0 background """ if not per_image: preds, labels = (preds,), (labels,) ious = [] for pred, label in zip(preds, labels): intersection = ((label == 1) & (pre...

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def _ReadPacket(self): """Read a single data record as a string (without length or checksum). """ len_char = self.ser.read(1) if not len_char: logging.error("Reading from serial port timed out.") return None data_len = ord(len_char) if not data_le...

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def unescape(s): """The reverse function of `escape`. This unescapes all the HTML entities, not only the XML entities inserted by `escape`. :param s: the string to unescape. """ def handle_match(m): name = m.group(1) if name in HTMLBuilder._entities: return unichr(HTMLB...

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def _log_intermediate_failure(self, err, flaky, name): """ Report that the test has failed, but still has reruns left. Then rerun the test. :param err: Information about the test failure (from sys.exc_info()) :type err: `tuple` of `class`, :class:`Excepti...

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def set_position(self, x, y, width, height): """Set window top-left corner position and size""" SetWindowPos(self._hwnd, None, x, y, width, height, ctypes.c_uint(0))

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def run(self): """Start the game loop""" global world self.__is_running = True while(self.__is_running): #Our game loop #Catch our events self.__handle_events() #Update our clock self.__clock.tick(self.preferred_fps) ...

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def get_except_handler_name(self, node): """ Helper to get the exception name from an ExceptHandler node in both py2 and py3. """ name = node.name if not name: return None if version_info < (3,): return name.id return name

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def read(self, length, timeout): """Read 'length' bytes from this stream transport. Args: length: If not 0, read this many bytes from the stream, otherwise read all available data (at least one byte). timeout: timeouts.PolledTimeout to use for this read operation. Returns: The by...

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def keep_max_priority_effects(effects): """ Given a list of effects, only keep the ones with the maximum priority effect type. Parameters ---------- effects : list of MutationEffect subclasses Returns list of same length or shorter """ priority_values = map(effect_priority, effects...

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def remove_leaf_names(self): """ Set the name of all leaf nodes in the subtree to None. """ self.visit(lambda n: setattr(n, 'name', None), lambda n: n.is_leaf)

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def init_app(self, app): """ For Flask using the app config """ self.__init__(aws_access_key_id=app.config.get("SES_AWS_ACCESS_KEY"), aws_secret_access_key=app.config.get("SES_AWS_SECRET_KEY"), region=app.config.get("SES_REGION", "us-east-1"), ...

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def check_valence(self): """ check valences of all atoms :return: list of invalid atoms """ return [x for x, atom in self.atoms() if not atom.check_valence(self.environment(x))]

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def create(args): """ Create a model from wavelength and flux files. """ from sick.models.create import create return create(os.path.join(args.output_dir, args.model_name), args.grid_points_filename, args.wavelength_filenames, clobber=args.clobber)

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def sub_state_by_gene_name(self, *gene_names: str) -> 'State': """ Create a sub state with only the gene passed in arguments. Example ------- >>> state.sub_state_by_gene_name('operon') {operon: 2} >>> state.sub_state_by_gene_name('mucuB') {mucuB: 0} ...

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def _equaBreaks(self, orbit_index_period=24.): """Determine where breaks in an equatorial satellite orbit occur. Looks for negative gradients in local time (or longitude) as well as breaks in UT. Parameters ---------- orbit_index_period : float The change in...

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def get_hpkp_pin(cls, certificate: cryptography.x509.Certificate) -> str: """Generate the HTTP Public Key Pinning hash (RFC 7469) for the given certificate. """ return b64encode(cls.get_public_key_sha256(certificate)).decode('utf-8')

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def array_scanlines_interlace(self, pixels): """ Generator for interlaced scanlines from an array. `pixels` is the full source image as a single array of values. The generator yields each scanline of the reduced passes in turn, each scanline being a sequence of values. ""...

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def cli(ctx, organism_id, common_name, directory, blatdb="", species="", genus="", public=False): """Update an organism Output: a dictionary with information about the new organism """ return ctx.gi.organisms.update_organism(organism_id, common_name, directory, blatdb=blatdb, species=species, genus=ge...

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def file_follow_durable( path, min_dump_interval=10, xattr_name='user.collectd.logtail.pos', xattr_update=True, **follow_kwz ): '''Records log position into xattrs after reading line every min_dump_interval seconds. Checksum of the last line at the position is also recorded (so line itself don't have to ...

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def evaluate(self): """ Converts the current expression into a single matcher, applying coordination operators to operands according to their binding rules """ # Apply Shunting Yard algorithm to convert the infix expression # into Reverse Polish Notation. Since we have a ver...

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def find(self, name, required): """ Finds all matching dependencies by their name. :param name: the dependency name to locate. :param required: true to raise an exception when no dependencies are found. :return: a list of found dependencies """ if name == None:...

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def uncompress_file(input_file_name, file_extension, dest_dir): """ Uncompress gz and bz2 files """ if file_extension.lower() not in ('.gz', '.bz2'): raise NotImplementedError("Received {} format. Only gz and bz2 " "files can currently be uncompressed." ...

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def calc_rho_and_rho_bar_squared(final_log_likelihood, null_log_likelihood, num_est_parameters): """ Calculates McFadden's rho-squared and rho-bar squared for the given model. Parameters ---------- final_log_likelihood : float. ...

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def _params_type(self, method_name, instance): """ Check to see if this is a legacy method or shiny new one legacy update method: def update(self, i3s_output_list, i3s_config): ... new update method: def update(self): ... ...

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def _calc(self, x, y): """ List based implementation of binary tree algorithm for concordance measure after :cite:`Christensen2005`. """ x = np.array(x) y = np.array(y) n = len(y) perm = list(range(n)) perm.sort(key=lambda a: (x[a], y[a])) ...

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def namedb_update_must_equal( rec, change_fields ): """ Generate the set of fields that must stay the same across an update. """ must_equal = [] if len(change_fields) != 0: given = rec.keys() for k in given: if k not in change_fields: must_equal.appen...

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def _set_choices(self, value): """ Also update the widget's choices. """ super(LazyChoicesMixin, self)._set_choices(value) self.widget.choices = value

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def schema_validate(instance, schema, exc_class, *prefix, **kwargs): """ Schema validation helper. Performs JSONSchema validation. If a schema validation error is encountered, an exception of the designated class is raised with the validation error message appropriately simplified and passed as th...

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def read_struct_file(struct_data): """Interpret a struct file defining the location of variables in memory. Parameters ---------- struct_data : :py:class:`bytes` String of :py:class:`bytes` containing data to interpret as the struct definition. Returns ------- {struct_name:...

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def find_command(self, argv): """Given an argument list, find a command and return the processor and any remaining arguments. """ search_args = argv[:] name = '' while search_args: if search_args[0].startswith('-'): name = '%s %s' % (name, sear...

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def xmoe2_dense(sz): """Series of architectural experiments on language modeling. Larger models than the ones above. All models are trained on sequences of 1024 tokens. We assume infinite training data, so no dropout necessary. We process 2^36 tokens in training = 524288 steps at batch size 128 TODO(noa...

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def auto_model_name_recognize(model_name): """ 自动将 site-user 识别成 SiteUser :param model_name: :return: """ name_list = model_name.split('-') return ''.join(['%s%s' % (name[0].upper(), name[1:]) for name in name_list])

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def get_version(self): """Get blink(1) firmware version """ if ( self.dev == None ): return '' buf = [REPORT_ID, ord('v'), 0, 0, 0, 0, 0, 0, 0] self.write(buf) time.sleep(.05) version_raw = self.read() version = (version_raw[3] - ord('0')) * 100 + (version...

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def assign_bus_results(grid, bus_data): """ Write results obtained from PF to graph Parameters ---------- grid: ding0.network bus_data: pandas.DataFrame DataFrame containing voltage levels obtained from PF analysis """ # iterate of nodes and assign voltage obtained from power f...

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def simxSetUISlider(clientID, uiHandle, uiButtonID, position, operationMode): ''' Please have a look at the function description/documentation in the V-REP user manual ''' return c_SetUISlider(clientID, uiHandle, uiButtonID, position, operationMode)

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def _save(self, name, content): """ Saves only when a file with a name and a content is not already uploaded to Cloudinary. """ name = self.clean_name(name) # to change to UNIX style path on windows if necessary if not self._exists_with_etag(name, content): content.s...

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def query(self, body, params=None): """ `<Execute SQL>`_ :arg body: Use the `query` element to start a query. Use the `cursor` element to continue a query. :arg format: a short version of the Accept header, e.g. json, yaml """ if body in SKIP_IN_PATH: ...

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def music_info(songid): """ Get music info from baidu music api """ if isinstance(songid, list): songid = ','.join(songid) data = { "hq": 1, "songIds": songid } res = requests.post(MUSIC_INFO_URL, data=data) info = res.json() music_data = info["data"] son...

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def potinf(self, x, y, aq=None): '''Can be called with only one x,y value''' if aq is None: aq = self.model.aq.find_aquifer_data(x, y) rv = np.zeros((self.nparam, aq.naq)) if aq == self.aq: pot = np.zeros(aq.naq) pot[:] = self.bessel.potbeslsho(float(x), float(y),...

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def find_in_history(self, tocursor, start_idx, backward): """Find text 'tocursor' in history, from index 'start_idx'""" if start_idx is None: start_idx = len(self.history) # Finding text in history step = -1 if backward else 1 idx = start_idx if len(toc...

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def clinsig_query(self, query, mongo_query): """ Add clinsig filter values to the mongo query object Args: query(dict): a dictionary of query filters specified by the users mongo_query(dict): the query that is going to be submitted to the database Return...

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def __select_text_under_cursor_blocks(self, cursor): """ Selects the document text under cursor blocks. :param cursor: Cursor. :type cursor: QTextCursor """ start_block = self.document().findBlock(cursor.selectionStart()).firstLineNumber() end_block = self.docum...

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def data_to_uuid(data): """Convert an array of binary data to the iBeacon uuid format.""" string = data_to_hexstring(data) return string[0:8]+'-'+string[8:12]+'-'+string[12:16]+'-'+string[16:20]+'-'+string[20:32]

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def hash_stream(fileobj, hasher=None, blocksize=65536): """Read from fileobj stream, return hash of its contents. Args: fileobj: File-like object with read() hasher: Hash object such as hashlib.sha1(). Defaults to sha1. blocksize: Read from fileobj this many bytes at a time. """ hashe...

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def run(self, model_id, name, arguments={}, properties=None): """Create a new model run with given name, arguments, and properties. Parameters ---------- model_id : string Unique model identifier name : string User-defined name for experiment argum...

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def addCorpusId(self, value): '''Adds SourceId to External_Info ''' if isinstance(value, Corpus_Id): self.corpus_ids.append(value) else: raise (TypeError, 'source_id Type should be Source_Id, not %s' % type(source_id))

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def remove(name=None, pkgs=None, **kwargs): ''' Remove a package and all its dependencies which are not in use by other packages. name The name of the package to be deleted. Multiple Package Options: pkgs A list of packages to delete. Must be passed as a python list. The ...

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def select(*args): """Select specific columns from DataFrame. Output will be DplyFrame type. Order of columns will be the same as input into select. >>> diamonds >> select(X.color, X.carat) >> head(3) Out: color carat 0 E 0.23 1 E 0.21 2 E 0.23 Grouping variables are implied...

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def _filter_unique_identities(uidentities, matcher): """Filter a set of unique identities. This function will use the `matcher` to generate a list of `FilteredIdentity` objects. It will return a tuple with the list of filtered objects, the unique identities not filtered and a table mapping uuids wi...

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def get_tasker2_slabs(self, tol=0.01, same_species_only=True): """ Get a list of slabs that have been Tasker 2 corrected. Args: tol (float): Tolerance to determine if atoms are within same plane. This is a fractional tolerance, not an absolute one. same_s...

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def prior_model_name_prior_tuples_dict(self): """ Returns ------- class_priors_dict: {String: [Prior]} A dictionary mapping_matrix the names of priors to lists of associated priors """ return {name: list(prior_model.prior_tuples) for name, prior_model in self....

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def handle_control(self, req, worker_id, req_info): """ Handles a control_request received from a worker. Returns: string or dict: response 'stop' - the worker should quit 'wait' - wait for 1 second 'eval' - evaluate on valid and test set to start...

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def proc_image(self, tokens): """ Returns the components of an image. """ print "IMAGE:", tokens, tokens.asList(), tokens.keys() raise NotImplementedError

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