signature
stringlengths
29
44.1k
implementation
stringlengths
0
85.2k
def set_sub_stream_format ( self , format , callback = None ) : '''Set the stream fromat of sub stream ? ? ? ?'''
params = { 'format' : format } return self . execute_command ( 'setSubStreamFormat' , params , callback = callback )
def delete_subscription ( self , subscription_id ) : """Unsubscribe , delete the relationship of the customer with the plan . Args : subscription _ id : Identification of the subscription . Returns :"""
return self . client . _delete ( self . url + 'subscriptions/{}' . format ( subscription_id ) , headers = self . get_headers ( ) )
def comment_unvote ( self , comment_id ) : """Lets you unvote a specific comment ( Requires login ) . Parameters : comment _ id ( int ) :"""
return self . _get ( 'posts/{0}/unvote.json' . format ( comment_id ) , method = 'POST' , auth = True )
def read_hlet_wcs ( filename , ext ) : """Insure ` stwcs . wcsutil . HSTWCS ` includes all attributes of a full image WCS . For headerlets , the WCS does not contain information about the size of the image , as the image array is not present in the headerlet ."""
hstwcs = wcsutil . HSTWCS ( filename , ext = ext ) if hstwcs . naxis1 is None : hstwcs . naxis1 = int ( hstwcs . wcs . crpix [ 0 ] * 2. ) # Assume crpix is center of chip hstwcs . naxis2 = int ( hstwcs . wcs . crpix [ 1 ] * 2. ) return hstwcs
def set_group_type ( self , group , bulb_type ) : """Set bulb type for specified group . Group must be int between 1 and 4. Type must be " rgbw " or " white " . Alternatively , use constructor keywords group _ 1 , group _ 2 etc . to set bulb types ."""
if bulb_type not in ( "rgbw" , "white" ) : raise AttributeError ( "Bulb type must be either rgbw or white" ) self . group [ group ] = bulb_type self . has_white = "white" in self . group . values ( ) self . has_rgbw = "rgbw" in self . group . values ( )
def dirname ( self , path ) : """Returns the full path to the parent directory of the specified file path ."""
if self . is_ssh ( path ) : remotepath = self . _get_remote ( path ) remotedir = os . path . dirname ( remotepath ) return self . _get_tramp_path ( remotedir ) else : return os . path . dirname ( path )
def get_queryset ( self ) : """Get the queryset for the action . If action is read action , return a CachedQueryset Otherwise , return a Django queryset"""
queryset = super ( CachedViewMixin , self ) . get_queryset ( ) if self . action in ( 'list' , 'retrieve' ) : return CachedQueryset ( self . get_queryset_cache ( ) , queryset = queryset ) else : return queryset
def _read_data ( path ) : """Read Rdump output and transform to Python dictionary . Parameters path : str Returns Dict key , values pairs from Rdump formatted data ."""
data = { } with open ( path , "r" ) as f_obj : var = "" for line in f_obj : if "<-" in line : if len ( var ) : key , var = _process_data_var ( var ) data [ key ] = var var = "" var += " " + line . strip ( ) if len ( var ) : key ...
def match_class_glob ( _class , saltclass_path ) : '''Takes a class name possibly including ` * ` or ` ? ` wildcards ( or any other wildcards supportet by ` glob . glob ` ) and returns a list of expanded class names without wildcards . . . code - block : : python classes = match _ class _ glob ( ' services . ...
straight , sub_init , sub_straight = get_class_paths ( _class , saltclass_path ) classes = [ ] matches = [ ] matches . extend ( glob . glob ( straight ) ) matches . extend ( glob . glob ( sub_straight ) ) matches . extend ( glob . glob ( sub_init ) ) if not matches : log . warning ( '%s: Class globbing did not yiel...
def _process_data ( self , src_key , limit = None ) : """This function will process the data files from Coriell . We make the assumption that any alleles listed are variants ( alternates to w . t . ) Triples : ( examples ) : NIGMSrepository a CLO _ 000008 # repository label : NIGMS Human Genetic Cell Repo...
raw = '/' . join ( ( self . rawdir , self . files [ src_key ] [ 'file' ] ) ) LOG . info ( "Processing Data from %s" , raw ) if self . test_mode : # set the graph to build graph = self . testgraph else : graph = self . graph family = Family ( graph ) model = Model ( graph ) line_counter = 1 geno = Genotype ( gra...
def do_enable ( ) : """Uncomment any lines that start with # import in the . pth file"""
try : _lines = [ ] with open ( vext_pth , mode = 'r' ) as f : for line in f . readlines ( ) : if line . startswith ( '#' ) and line [ 1 : ] . lstrip ( ) . startswith ( 'import ' ) : _lines . append ( line [ 1 : ] . lstrip ( ) ) else : _lines . appe...
def _render_picking ( self , ** kwargs ) : """Render the scene in picking mode , returning a 2D array of visual IDs ."""
try : self . _scene . picking = True img = self . render ( bgcolor = ( 0 , 0 , 0 , 0 ) , ** kwargs ) finally : self . _scene . picking = False img = img . astype ( 'int32' ) * [ 2 ** 0 , 2 ** 8 , 2 ** 16 , 2 ** 24 ] id_ = img . sum ( axis = 2 ) . astype ( 'int32' ) return id_
def _get_tcpip_interface_info ( interface ) : '''return details about given tcpip interface'''
base_information = _get_base_interface_info ( interface ) if base_information [ 'ipv4' ] [ 'requestmode' ] == 'static' : settings = _load_config ( interface . name , [ 'IP_Address' , 'Subnet_Mask' , 'Gateway' , 'DNS_Address' ] ) base_information [ 'ipv4' ] [ 'address' ] = settings [ 'IP_Address' ] base_info...
def rez_bin_path ( self ) : """Get path containing rez binaries , or None if no binaries are available , or Rez is not a production install ."""
binpath = None if sys . argv and sys . argv [ 0 ] : executable = sys . argv [ 0 ] path = which ( "rezolve" , env = { "PATH" : os . path . dirname ( executable ) , "PATHEXT" : os . environ . get ( "PATHEXT" , "" ) } ) binpath = os . path . dirname ( path ) if path else None # TODO : improve this , could stil...
def flatten ( dictionary , separator = '.' , prefix = '' ) : """Flatten the dictionary keys are separated by separator Arguments : dictionary { dict } - - The dictionary to be flattened . Keyword Arguments : separator { str } - - The separator to use ( default is ' . ' ) . It will crush items with key con...
new_dict = { } for key , value in dictionary . items ( ) : new_key = prefix + separator + key if prefix else key if isinstance ( value , collections . MutableMapping ) : new_dict . update ( flatten ( value , separator , new_key ) ) elif isinstance ( value , list ) : new_value = [ ] f...
def get_audits ( ) : """Get OS hardening sysctl audits . : returns : dictionary of audits"""
audits = [ ] settings = utils . get_settings ( 'os' ) # Apply the sysctl settings which are configured to be applied . audits . append ( SysctlConf ( ) ) # Make sure that only root has access to the sysctl . conf file , and # that it is read - only . audits . append ( FilePermissionAudit ( '/etc/sysctl.conf' , user = '...
def stop_event ( self ) : """Called by the event loop when it is stopped . Calls : py : meth : ` on _ stop ` , then sends : py : data : ` None ` to each output to shut down the rest of the processing pipeline ."""
self . logger . debug ( 'stopping' ) try : self . on_stop ( ) except Exception as ex : self . logger . exception ( ex ) for name in self . outputs : self . send ( name , None )
def _handle_config ( self , data ) : """Handles received configuration data . : param data : Configuration string to parse : type data : string"""
_ , config_string = data . split ( '>' ) for setting in config_string . split ( '&' ) : key , val = setting . split ( '=' ) if key == 'ADDRESS' : self . address = int ( val ) elif key == 'CONFIGBITS' : self . configbits = int ( val , 16 ) elif key == 'MASK' : self . address_mask ...
def get_ao_chans ( dev ) : """Discover and return a list of the names of all analog output channels for the given device : param dev : the device name : type dev : str"""
buf = create_string_buffer ( 256 ) buflen = c_uint32 ( sizeof ( buf ) ) DAQmxGetDevAOPhysicalChans ( dev . encode ( ) , buf , buflen ) pybuf = buf . value chans = pybuf . decode ( u'utf-8' ) . split ( u"," ) return chans
def process_item_nodes ( app , doctree , fromdocname ) : """This function should be triggered upon ` ` doctree - resolved event ` ` Replace all item _ list nodes with a list of the collected items . Augment each item with a backlink to the original location ."""
env = app . builder . env all_items = sorted ( env . traceability_all_items , key = naturalsortkey ) # Item matrix : # Create table with related items , printing their target references . # Only source and target items matching respective regexp shall be included for node in doctree . traverse ( item_matrix ) : tab...
def ensure_security_header ( envelope , queue ) : """Insert a security XML node if it doesn ' t exist otherwise update it ."""
( header , ) = HEADER_XPATH ( envelope ) security = SECURITY_XPATH ( header ) if security : for timestamp in TIMESTAMP_XPATH ( security [ 0 ] ) : queue . push_and_mark ( timestamp ) return security [ 0 ] else : nsmap = { 'wsu' : ns . wsuns [ 1 ] , 'wsse' : ns . wssens [ 1 ] , } return _create_el...
def execute ( self , input_data ) : '''Execute the Unzip worker'''
raw_bytes = input_data [ 'sample' ] [ 'raw_bytes' ] zipfile_output = zipfile . ZipFile ( StringIO ( raw_bytes ) ) payload_md5s = [ ] for name in zipfile_output . namelist ( ) : filename = os . path . basename ( name ) payload_md5s . append ( self . workbench . store_sample ( zipfile_output . read ( name ) , nam...
def entry_index ( request , limit = 0 , template = 'djournal/entry_index.html' ) : '''Returns a reponse of a fixed number of entries ; all of them , by default .'''
entries = Entry . public . all ( ) if limit > 0 : entries = entries [ : limit ] context = { 'entries' : entries , } return render_to_response ( template , context , context_instance = RequestContext ( request ) , )
def peak_interval ( data , alpha = _alpha , npoints = _npoints ) : """Identify interval using Gaussian kernel density estimator ."""
peak = kde_peak ( data , npoints ) x = np . sort ( data . flat ) ; n = len ( x ) # The number of entries in the interval window = int ( np . rint ( ( 1.0 - alpha ) * n ) ) # The start , stop , and width of all possible intervals starts = x [ : n - window ] ; ends = x [ window : ] widths = ends - starts # Just the inter...
def color_hex_to_dec_tuple ( color ) : """Converts a color from hexadecimal to decimal tuple , color can be in the following formats : 3 - digit RGB , 4 - digit ARGB , 6 - digit RGB and 8 - digit ARGB ."""
assert len ( color ) in [ 3 , 4 , 6 , 8 ] if len ( color ) in [ 3 , 4 ] : color = "" . join ( [ c * 2 for c in color ] ) n = int ( color , 16 ) t = ( ( n >> 16 ) & 255 , ( n >> 8 ) & 255 , n & 255 ) if len ( color ) == 8 : t = t + ( ( n >> 24 ) & 255 , ) return t
def putlogo ( figure = None ) : """Puts the CREDO logo at the bottom right of the current figure ( or the figure given by the ` ` figure ` ` argument if supplied ) ."""
ip = get_ipython ( ) if figure is None : figure = plt . gcf ( ) curraxis = figure . gca ( ) logoaxis = figure . add_axes ( [ 0.89 , 0.01 , 0.1 , 0.1 ] , anchor = 'NW' ) logoaxis . set_axis_off ( ) logoaxis . xaxis . set_visible ( False ) logoaxis . yaxis . set_visible ( False ) logoaxis . imshow ( credo_logo ) figu...
def _evaluate ( self , R , z , phi = 0. , t = 0. ) : """NAME : _ evaluate PURPOSE : evaluate the potential at ( R , z ) INPUT : R - Cylindrical Galactocentric radius z - vertical height phi - azimuth t - time OUTPUT : potential at ( R , z ) HISTORY : 2016-05-09 - Written - Aladdin"""
return - self . _denom ( R , z ) ** - 0.5
def fill_key_info ( self , key_info , signature_method ) : """Fills the KeyInfo node : param key _ info : KeyInfo node : type key _ info : lxml . etree . Element : param signature _ method : Signature node to use : type signature _ method : str : return : None"""
x509_data = key_info . find ( 'ds:X509Data' , namespaces = constants . NS_MAP ) if x509_data is not None : self . fill_x509_data ( x509_data ) key_name = key_info . find ( 'ds:KeyName' , namespaces = constants . NS_MAP ) if key_name is not None and self . key_name is not None : key_name . text = self . key_name...
def parse_delay_import_directory ( self , rva , size ) : """Walk and parse the delay import directory ."""
import_descs = [ ] error_count = 0 while True : try : # If the RVA is invalid all would blow up . Some PEs seem to be # specially nasty and have an invalid RVA . data = self . get_data ( rva , Structure ( self . __IMAGE_DELAY_IMPORT_DESCRIPTOR_format__ ) . sizeof ( ) ) except PEFormatError as e : ...
def process_route_spec_config ( con , vpc_info , route_spec , failed_ips , questionable_ips ) : """Look through the route spec and update routes accordingly . Idea : Make sure we have a route for each CIDR . If we have a route to any of the IP addresses for a given CIDR then we are good . Otherwise , pick one...
if CURRENT_STATE . _stop_all : logging . debug ( "Routespec processing. Stop requested, abort operation" ) return if failed_ips : logging . debug ( "Route spec processing. Failed IPs: %s" % "," . join ( failed_ips ) ) else : logging . debug ( "Route spec processing. No failed IPs." ) # Iterate over all ...
def linkcode_resolve ( domain , info ) : """Determine the URL corresponding to Python object on GitHub This code is derived from the version used by ` Numpy < https : / / github . com / numpy / numpy / blob / v1.9.2 / doc / source / conf . py # L286 > ` _ ."""
# Only link to Python source if domain != 'py' : return None # Get a reference to the object in question modname = info [ 'module' ] fullname = info [ 'fullname' ] submod = sys . modules . get ( modname ) if submod is None : return None obj = submod for part in fullname . split ( '.' ) : try : obj =...
def add_string_widget ( self , ref , text = "Text" , x = 1 , y = 1 ) : """Add String Widget"""
if ref not in self . widgets : widget = widgets . StringWidget ( screen = self , ref = ref , text = text , x = x , y = y ) self . widgets [ ref ] = widget return self . widgets [ ref ]
async def delete ( self , key , namespace = None , _conn = None ) : """Deletes the given key . : param key : Key to be deleted : param namespace : str alternative namespace to use : param timeout : int or float in seconds specifying maximum timeout for the operations to last : returns : int number of dele...
start = time . monotonic ( ) ns_key = self . build_key ( key , namespace = namespace ) ret = await self . _delete ( ns_key , _conn = _conn ) logger . debug ( "DELETE %s %d (%.4f)s" , ns_key , ret , time . monotonic ( ) - start ) return ret
def _match_objects_against_atlas_footprint ( self , orbfitEph , ra , dec ) : """* match the orbfit generated object positions against atlas exposure footprint * * * Key Arguments : * * - ` ` orbfitEph ` ` - - the orbfit ephemerides - ` ` ra ` ` - - the ATLAS exposure RA ( degrees ) - ` ` dec ` ` - - the ATL...
self . log . info ( 'starting the ``_match_objects_against_atlas_footprint`` method' ) # GET THE ORBFIT MAG LIMIT magLimit = float ( self . settings [ "orbfit" ] [ "magnitude limit" ] ) tileSide = float ( self . settings [ "orbfit" ] [ "atlas exposure match side" ] ) pi = ( 4 * math . atan ( 1.0 ) ) DEG_TO_RAD_FACTOR =...
def isValidFeatureWriter ( klass ) : """Return True if ' klass ' is a valid feature writer class . A valid feature writer class is a class ( of type ' type ' ) , that has two required attributes : 1 ) ' tableTag ' ( str ) , which can be " GSUB " , " GPOS " , or other similar tags . 2 ) ' write ' ( bound met...
if not isclass ( klass ) : logger . error ( "%r is not a class" , klass ) return False if not hasattr ( klass , "tableTag" ) : logger . error ( "%r does not have required 'tableTag' attribute" , klass ) return False if not hasattr ( klass , "write" ) : logger . error ( "%r does not have a required '...
def download_to_stream_by_name ( self , filename , destination , revision = - 1 , session = None ) : """Write the contents of ` filename ` ( with optional ` revision ` ) to ` destination ` . For example : : my _ db = MongoClient ( ) . test fs = GridFSBucket ( my _ db ) # Get file to write to file = open...
with self . open_download_stream_by_name ( filename , revision , session = session ) as gout : for chunk in gout : destination . write ( chunk )
def has_c_library ( library , extension = ".c" ) : """Check whether a C / C + + library is available on the system to the compiler . Parameters library : str The library we want to check for e . g . if we are interested in FFTW3 , we want to check for ` fftw3 . h ` , so this parameter will be ` fftw3 ` . ...
with tempfile . TemporaryDirectory ( dir = "." ) as directory : name = join ( directory , "%s%s" % ( library , extension ) ) with open ( name , "w" ) as f : f . write ( "#include <%s.h>\n" % library ) f . write ( "int main() {}\n" ) # Get a compiler instance compiler = ccompiler . new_co...
def split_on ( s , sep = " " ) : """Split s by sep , unless it ' s inside a quote ."""
pattern = '''((?:[^%s"']|"[^"]*"|'[^']*')+)''' % sep return [ _strip_speechmarks ( t ) for t in re . split ( pattern , s ) [ 1 : : 2 ] ]
def from_string ( cls , s ) : """Decode from the YY token lattice format ."""
def _qstrip ( s ) : return s [ 1 : - 1 ] # remove assumed quote characters tokens = [ ] for match in _yy_re . finditer ( s ) : d = match . groupdict ( ) lnk , pos = None , [ ] if d [ 'lnkfrom' ] is not None : lnk = Lnk . charspan ( d [ 'lnkfrom' ] , d [ 'lnkto' ] ) if d [ 'pos' ] is not ...
def restrict_dates ( feed : "Feed" , dates : List [ str ] ) -> List [ str ] : """Given a " Feed " and a date ( YYYYMMDD string ) or list of dates , coerce the date / dates into a list and drop the dates not in ` ` feed . get _ dates ( ) ` ` , preserving the original order of ` ` dates ` ` . Intended as a help...
# Coerce string to set if isinstance ( dates , str ) : dates = [ dates ] # Restrict return [ d for d in dates if d in feed . get_dates ( ) ]
def get_maxdays ( name ) : '''Get the maximum age of the password : param str name : The username of the account : return : The maximum age of the password in days : rtype : int : raises : CommandExecutionError on user not found or any other unknown error CLI Example : . . code - block : : bash salt '...
policies = _get_account_policy ( name ) if 'maxMinutesUntilChangePassword' in policies : max_minutes = policies [ 'maxMinutesUntilChangePassword' ] return int ( max_minutes ) / 24 / 60 return 0
def get_stp_mst_detail_output_msti_port_internal_path_cost ( self , ** kwargs ) : """Auto Generated Code"""
config = ET . Element ( "config" ) get_stp_mst_detail = ET . Element ( "get_stp_mst_detail" ) config = get_stp_mst_detail output = ET . SubElement ( get_stp_mst_detail , "output" ) msti = ET . SubElement ( output , "msti" ) instance_id_key = ET . SubElement ( msti , "instance-id" ) instance_id_key . text = kwargs . pop...
def _request ( self , path , method , body = None ) : "Base request function"
h = httplib2 . Http ( ) resp , content = h . request ( self . base_url + path , method , body = json . dumps ( body ) , ) if resp [ 'status' ] == "200" : return json . loads ( content ) else : raise IOError ( "Got %s reponse from server (%s)" % ( resp [ 'status' ] , content , ) )
def delete_by_id ( self , del_id ) : '''Delete a link by id .'''
if self . check_post_role ( ) [ 'DELETE' ] : pass else : return False if self . is_p : if MLink . delete ( del_id ) : output = { 'del_link' : 1 } else : output = { 'del_link' : 0 } return json . dump ( output , self ) else : is_deleted = MLink . delete ( del_id ) if is_delete...
def updatePSL ( psl_file = PSLFILE ) : """Updates a local copy of PSL file : param psl _ file : path for the file to store the list . Default : PSLFILE"""
if requests is None : raise Exception ( "Please install python-requests http(s) library. $ sudo pip install requests" ) r = requests . get ( PSLURL ) if r . status_code != requests . codes . ok or len ( r . content ) == 0 : raise Exception ( "Could not download PSL from " + PSLURL ) lastmod = r . headers . get ...
def _snippet_ranges ( cls , num_src_lines , violation_lines ) : """Given the number of source file lines and list of violation line numbers , return a list of snippet ranges of the form ` ( start _ line , end _ line ) ` . Each snippet contains a few extra lines of context before / after the first / last vio...
current_range = ( None , None ) lines_since_last_violation = 0 snippet_ranges = [ ] for line_num in range ( 1 , num_src_lines + 1 ) : # If we have not yet started a snippet , # check if we can ( is this line a violation ? ) if current_range [ 0 ] is None : if line_num in violation_lines : # Expand to includ...
def fillna ( self , ** kwargs ) : """Replaces NaN values with the method provided . Returns : A new QueryCompiler with null values filled ."""
axis = kwargs . get ( "axis" , 0 ) value = kwargs . get ( "value" ) if isinstance ( value , dict ) : value = kwargs . pop ( "value" ) if axis == 0 : index = self . columns else : index = self . index value = { idx : value [ key ] for key in value for idx in index . get_indexer_for ( [ ke...
def mean_absolute_deviation ( df , col_true , col_pred = None ) : """Compute mean absolute deviation ( MAD ) of a predicted DataFrame . Note that this method will trigger the defined flow to execute . : param df : predicted data frame : type df : DataFrame : param col _ true : column name of true value : ...
if not col_pred : col_pred = get_field_name_by_role ( df , FieldRole . PREDICTED_VALUE ) return _run_evaluation_node ( df , col_true , col_pred ) [ 'mad' ]
def fetchmany ( self , size = None ) : """Fetch several rows"""
self . _check_executed ( ) if self . _rows is None : return ( ) end = self . rownumber + ( size or self . arraysize ) result = self . _rows [ self . rownumber : end ] self . rownumber = min ( end , len ( self . _rows ) ) return result
def get_stream ( data = None ) : """Get a MemoryStream instance . Args : data ( bytes , bytearray , BytesIO ) : ( Optional ) data to create the stream from . Returns : MemoryStream : instance ."""
if len ( __mstreams_available__ ) == 0 : if data : mstream = MemoryStream ( data ) mstream . seek ( 0 ) else : mstream = MemoryStream ( ) __mstreams__ . append ( mstream ) return mstream mstream = __mstreams_available__ . pop ( ) if data is not None and len ( data ) : mstream...
def from_triples ( cls , triples , remap_nodeids = True ) : """Decode triples , as from : meth : ` to _ triples ` , into a Dmrs object ."""
top_nid = str ( LTOP_NODEID ) top = lnk = surface = identifier = None nids , nd , edges = [ ] , { } , [ ] for src , rel , tgt in triples : src , tgt = str ( src ) , str ( tgt ) # hack for int - converted src / tgt if src == top_nid and rel == 'top' : top = tgt continue elif src not in nd...
def file_sizes ( self ) : """Returns total filesize ( in MB )"""
size = sum ( map ( os . path . getsize , self . file_list ) ) return size / 1024 / 1024
def rest_action ( self , func , url , ** kwargs ) : """Routine to do low - level REST operation , with retry . Args : func ( callable ) : API function to call url ( str ) : service URL endpoint kwargs ( dict ) : addition parameters Raises : requests . RequestException : Exception connection error Valu...
try : response = func ( url , timeout = self . TIMEOUT , ** kwargs ) except requests . RequestException , err : log . exception ( "[PyLmod] Error - connection error in " "rest_action, err=%s" , err ) raise err try : return response . json ( ) except ValueError , err : log . exception ( 'Unable to de...
def get_capacity ( self , legacy = None ) : """Get capacity of all facilities . : param legacy : Indicate set of server types to include in response Validation of ` legacy ` is left to the packet api to avoid going out of date if any new value is introduced . The currently known values are : - only ( curren...
params = None if legacy : params = { 'legacy' : legacy } return self . call_api ( '/capacity' , params = params ) [ 'capacity' ]
def _compat_inet_pton ( family , addr ) : """socket . inet _ pton for platforms that don ' t have it"""
if family == socket . AF_INET : # inet _ aton accepts some strange forms , so we use our own res = _compat_bytes ( '' ) parts = addr . split ( '.' ) if len ( parts ) != 4 : raise ValueError ( 'Expected 4 dot-separated numbers' ) for part in parts : intval = int ( part , 10 ) if i...
def base0_interval_for_variant_fields ( base1_location , ref , alt ) : """Inteval of interbase offsets of the affected reference positions for a particular variant ' s primary fields ( pos , ref , alt ) . Parameters base1 _ location : int First reference nucleotide of variant or , for insertions , the base ...
if len ( ref ) == 0 : # in interbase coordinates , the insertion happens # at the same start / end offsets , since those are already between # reference bases . Furthermore , since the convention for base - 1 # coordinates is to locate the insertion * after * the position , # in this case the interbase and base - 1 pos...
def analysisJWT ( self , token ) : """解析token , 返回解码后的header 、 payload 、 signature等"""
_header , _payload , _signature = token . split ( "." ) data = { "header" : json . loads ( base64 . urlsafe_b64decode ( str ( _header ) ) ) , "payload" : json . loads ( base64 . urlsafe_b64decode ( str ( _payload ) ) ) , "signature" : base64 . urlsafe_b64decode ( str ( _signature ) ) } logging . debug ( "analysis token...
def set_naming_params ( self , autonaming = None , prefix = None , suffix = None , name = None ) : """Setups processes naming parameters . : param bool autonaming : Automatically set process name to something meaningful . Generated process names may be ' uWSGI Master ' , ' uWSGI Worker # ' , etc . : param str...
self . _set ( 'auto-procname' , autonaming , cast = bool ) self . _set ( 'procname-prefix%s' % ( '-spaced' if prefix and prefix . endswith ( ' ' ) else '' ) , prefix ) self . _set ( 'procname-append' , suffix ) self . _set ( 'procname' , name ) return self . _section
def download ( tickers , start = None , end = None , actions = False , threads = False , group_by = 'column' , auto_adjust = False , progress = True , period = "max" , interval = "1d" , prepost = False , ** kwargs ) : """Download yahoo tickers : Parameters : tickers : str , list List of tickers to download ...
global _PROGRESS_BAR , _DFS # create ticker list tickers = tickers if isinstance ( tickers , list ) else tickers . split ( ) if progress : _PROGRESS_BAR = _ProgressBar ( len ( tickers ) , 'downloaded' ) # reset _ DFS _DFS = { } # set thread count if True if threads is True : threads = min ( [ len ( tickers ) , ...
def create_content ( self , cli , width , height ) : """Create a UIContent object for this control ."""
complete_state = cli . current_buffer . complete_state if complete_state : completions = complete_state . current_completions index = complete_state . complete_index # Can be None ! # Calculate width of completions menu . menu_width = self . _get_menu_width ( width , complete_state ) menu_meta_w...
def _get_envelopes_centroid ( envelopes ) : """Returns the centroid of an inputted geometry column . Not currently in use , as this is now handled by this library ' s CRS wrapper directly . Light wrapper over ` ` _ get _ envelopes _ min _ maxes ` ` . Parameters envelopes : GeoSeries The envelopes of the giv...
xmin , xmax , ymin , ymax = _get_envelopes_min_maxes ( envelopes ) return np . mean ( xmin , xmax ) , np . mean ( ymin , ymax )
def deleteMask ( self , signature ) : """Delete just the mask that matches the signature given ."""
if signature in self . masklist : self . masklist [ signature ] = None else : log . warning ( "No matching mask" )
def get_parameter_dict ( self , include_frozen = False ) : """Get an ordered dictionary of the parameters Args : include _ frozen ( Optional [ bool ] ) : Should the frozen parameters be included in the returned value ? ( default : ` ` False ` ` )"""
return OrderedDict ( zip ( self . get_parameter_names ( include_frozen = include_frozen ) , self . get_parameter_vector ( include_frozen = include_frozen ) , ) )
def show_input ( self , template_helper , language , seed ) : """Show MatchProblem"""
header = ParsableText ( self . gettext ( language , self . _header ) , "rst" , translation = self . _translations . get ( language , gettext . NullTranslations ( ) ) ) return str ( DisplayableMatchProblem . get_renderer ( template_helper ) . tasks . match ( self . get_id ( ) , header ) )
def mfe ( self , strand , degenerate = False , temp = 37.0 , pseudo = False , material = None , dangles = 'some' , sodium = 1.0 , magnesium = 0.0 ) : '''Compute the MFE for an ordered complex of strands . Runs the \' mfe \' command . : param strand : Strand on which to run mfe . Strands must be either coral ....
# Set the material ( will be used to set command material flag ) material = self . _set_material ( strand , material ) # Set up command flags cmd_args = self . _prep_cmd_args ( temp , dangles , material , pseudo , sodium , magnesium , multi = False ) if degenerate : cmd_args . append ( '-degenerate' ) # Set up the ...
def __parse_drac ( output ) : '''Parse Dell DRAC output'''
drac = { } section = '' for i in output . splitlines ( ) : if i . strip ( ) . endswith ( ':' ) and '=' not in i : section = i [ 0 : - 1 ] drac [ section ] = { } if i . rstrip ( ) and '=' in i : if section in drac : drac [ section ] . update ( dict ( [ [ prop . strip ( ) for p...
def create_fw ( self , tenant_id , data ) : """Top level routine called when a FW is created ."""
try : return self . _create_fw ( tenant_id , data ) except Exception as exc : LOG . error ( "Failed to create FW for device native, tenant " "%(tenant)s data %(data)s Exc %(exc)s" , { 'tenant' : tenant_id , 'data' : data , 'exc' : exc } ) return False
def generate_csr ( private_key_bytes , subject_name , fqdn_list ) : """Generate a Certificate Signing Request ( CSR ) . Args : private _ key _ bytes : bytes Private key with which the CSR will be signed . subject _ name : str Certificate Subject Name fqdn _ list : List of Fully Qualified Domain Names ...
return ( cryptography . x509 . CertificateSigningRequestBuilder ( ) . subject_name ( subject_name ) . add_extension ( extension = cryptography . x509 . SubjectAlternativeName ( [ cryptography . x509 . DNSName ( v ) for v in fqdn_list ] ) , critical = False , ) . sign ( private_key = private_key_bytes , algorithm = cryp...
def wrap_json ( cls , json ) : """Create a User instance for the given json : param json : the dict with the information of the user : type json : : class : ` dict ` | None : returns : the new user instance : rtype : : class : ` User ` : raises : None"""
u = User ( usertype = json [ 'type' ] , name = json [ 'name' ] , logo = json [ 'logo' ] , twitchid = json [ '_id' ] , displayname = json [ 'display_name' ] , bio = json [ 'bio' ] ) return u
def _play_sound ( self , filename ) : """Shells player with the provided filename . ` filename ` Filename for sound file ."""
command = self . _get_external_player ( ) if not command : return # no player found if common . IS_MACOSX : command += ' "{0}"' . format ( filename ) else : # append quiet flag and filename is_play = ( command == 'play' ) command += ' -q "{0}"' . format ( filename ) # HACK : play can default to usin...
def _generate_security_groups ( config_key ) : """Read config file and generate security group dict by environment . Args : config _ key ( str ) : Configuration file key Returns : dict : of environments in { ' env1 ' : [ ' group1 ' , ' group2 ' ] } format"""
raw_default_groups = validate_key_values ( CONFIG , 'base' , config_key , default = '' ) default_groups = _convert_string_to_native ( raw_default_groups ) LOG . debug ( 'Default security group for %s is %s' , config_key , default_groups ) entries = { } for env in ENVS : entries [ env ] = [ ] if isinstance ( default...
def selection_strategy ( oasis_obj , strategy = 'spectral-oasis' , nsel = 1 , neig = None ) : """Factory for selection strategy object Returns selstr : SelectionStrategy Selection strategy object"""
strategy = strategy . lower ( ) if strategy == 'random' : return SelectionStrategyRandom ( oasis_obj , strategy , nsel = nsel , neig = neig ) elif strategy == 'oasis' : return SelectionStrategyOasis ( oasis_obj , strategy , nsel = nsel , neig = neig ) elif strategy == 'spectral-oasis' : return SelectionStra...
def run ( ** options ) : """_ run _ Run the dockerstache process to render templates based on the options provided If extend _ context is passed as options it will be used to extend the context with the contents of the dictionary provided via context . update ( extend _ context )"""
with Dotfile ( options ) as conf : if conf [ 'context' ] is None : msg = "No context file has been provided" LOGGER . error ( msg ) raise RuntimeError ( msg ) if not os . path . exists ( conf [ 'context_path' ] ) : msg = "Context file {} not found" . format ( conf [ 'context_path...
def timezone ( value , allow_empty = False , positive = True , ** kwargs ) : """Validate that ` ` value ` ` is a valid : class : ` tzinfo < python : datetime . tzinfo > ` . . . caution : : This does * * not * * verify whether the value is a timezone that actually exists , nor can it resolve timezone names ( e...
# pylint : disable = too - many - branches original_value = value if not value and not allow_empty : raise errors . EmptyValueError ( 'value (%s) was empty' % value ) elif not value : return None if not isinstance ( value , tzinfo_types ) : raise errors . CannotCoerceError ( 'value (%s) must be a tzinfo, ' ...
def get_field_label_css_class ( self , bound_field ) : """Returns the optional label CSS class to use when rendering a field template . By default , returns the Form class property ` field _ label _ css _ class ` . If the field has errors and the Form class property ` field _ label _ invalid _ css _ class ` i...
class_name = self . field_label_css_class if bound_field . errors and self . field_label_invalid_css_class : class_name = join_css_class ( class_name , self . field_label_invalid_css_class ) return class_name or None
def get ( self , what ) : """: param what : what to extract : returns : an ArrayWrapper instance"""
url = '%s/v1/calc/%d/extract/%s' % ( self . server , self . calc_id , what ) logging . info ( 'GET %s' , url ) resp = self . sess . get ( url ) if resp . status_code != 200 : raise WebAPIError ( resp . text ) npz = numpy . load ( io . BytesIO ( resp . content ) ) attrs = { k : npz [ k ] for k in npz if k != 'array'...
def chunk_sequence ( sequence , chunk_length = 200 , padding_value = 0 ) : """Split a nested dict of sequence tensors into a batch of chunks . This function does not expect a batch of sequences , but a single sequence . A ` length ` key is added if it did not exist already . Args : sequence : Nested dict of...
if 'length' in sequence : length = sequence . pop ( 'length' ) else : length = tf . shape ( tools . nested . flatten ( sequence ) [ 0 ] ) [ 0 ] num_chunks = ( length - 1 ) // chunk_length + 1 padding_length = chunk_length * num_chunks - length padded = tools . nested . map ( # pylint : disable = g - long - lamb...
def inject_request_ids_into_environment ( func ) : """Decorator for the Lambda handler to inject request IDs for logging ."""
@ wraps ( func ) def wrapper ( event , context ) : # This might not always be an API Gateway event , so only log the # request ID , if it looks like to be coming from there . if 'requestContext' in event : os . environ [ ENV_APIG_REQUEST_ID ] = event [ 'requestContext' ] . get ( 'requestId' , 'N/A' ) os...
def set_option ( section = 'main' , cfg_file = cfg_file , ** kwargs ) : """Change an option in our configuration file"""
parser = get_parser ( cfg_file = cfg_file ) if section not in parser . sections ( ) : parser . add_section ( section ) for k , v in kwargs . items ( ) : parser . set ( section = section , option = k , value = v ) with open ( cfg_file , 'w' ) as f : parser . write ( f ) return "Done"
def get_providing_power_source_type ( self ) : """Looks through all power supplies in POWER _ SUPPLY _ PATH . If there is an AC adapter online returns POWER _ TYPE _ AC . If there is a discharging battery , returns POWER _ TYPE _ BATTERY . Since the order of supplies is arbitrary , whatever found first is ret...
type = self . power_source_type ( ) if type == common . POWER_TYPE_AC : if self . is_ac_online ( ) : return common . POWER_TYPE_AC elif type == common . POWER_TYPE_BATTERY : if self . is_battery_present ( ) and self . is_battery_discharging ( ) : return common . POWER_TYPE_BATTERY ...
def process_posts_response ( self , response , path , params , max_pages ) : """Insert / update all posts in a posts list response , in batches . : param response : a response that contains a list of posts from the WP API : param path : the path we ' re using to get the list of posts ( for subsquent pages ) :...
page = 1 num_processed_posts = 0 api_posts_found = None while response . ok and response . text and page < max_pages : logger . info ( " - page: %d" , page ) posts = [ ] post_categories = { } post_tags = { } post_media_attachments = { } api_json = response . json ( ) api_posts = api_json . g...
def object_links ( self , multihash , ** kwargs ) : """Returns the links pointed to by the specified object . . . code - block : : python > > > c . object _ links ( ' QmTkzDwWqPbnAh5YiV5VwcTLnGdwSNsNTn2aDx . . . ca7D ' ) { ' Hash ' : ' QmTkzDwWqPbnAh5YiV5VwcTLnGdwSNsNTn2aDxdXBFca7D ' , ' Links ' : [ { ' H...
args = ( multihash , ) return self . _client . request ( '/object/links' , args , decoder = 'json' , ** kwargs )
def init_editing_mode ( self , e ) : # ( C - e ) u'''When in vi command mode , this causes a switch to emacs editing mode .'''
self . _bind_exit_key ( u'Control-d' ) self . _bind_exit_key ( u'Control-z' ) # I often accidentally hold the shift or control while typing space self . _bind_key ( u'space' , self . self_insert ) self . _bind_key ( u'Shift-space' , self . self_insert ) self . _bind_key ( u'Control-space' , self . self_insert ) self . ...
def select_highest_ranked ( elements , ranks ) : """Returns all of ' elements ' for which corresponding element in parallel list ' rank ' is equal to the maximum value in ' rank ' ."""
assert is_iterable ( elements ) assert is_iterable ( ranks ) if not elements : return [ ] max_rank = max_element ( ranks ) result = [ ] while elements : if ranks [ 0 ] == max_rank : result . append ( elements [ 0 ] ) elements = elements [ 1 : ] ranks = ranks [ 1 : ] return result
def _get_first_64k_content ( file_path ) : """Returns the first 65536 ( or the file size , whichever is smaller ) bytes of the file at the specified file path , as a bytearray ."""
if not isfile ( file_path ) : raise PathDoesNotExistException ( file_path ) file_size = getsize ( file_path ) content_size = min ( file_size , 0x10000 ) content = bytearray ( content_size ) with open ( file_path , "rb" ) as file_object : content_read = file_object . readinto ( content ) if content_read is N...
def set_maintext ( self , index ) : """Set the maintext _ lb to display text information about the given reftrack : param index : the index : type index : : class : ` QtGui . QModelIndex ` : returns : None : rtype : None : raises : None"""
dr = QtCore . Qt . DisplayRole text = "" model = index . model ( ) for i in ( 1 , 2 , 3 , 5 , 6 ) : new = model . index ( index . row ( ) , i , index . parent ( ) ) . data ( dr ) if new is not None : text = " | " . join ( ( text , new ) ) if text else new self . maintext_lb . setText ( text )
def set_base_prompt ( self , pri_prompt_terminator = ":" , alt_prompt_terminator = "#" , delay_factor = 2 ) : """Sets self . base _ prompt : used as delimiter for stripping of trailing prompt in output ."""
super ( AccedianSSH , self ) . set_base_prompt ( pri_prompt_terminator = pri_prompt_terminator , alt_prompt_terminator = alt_prompt_terminator , delay_factor = delay_factor , ) return self . base_prompt
def edit ( self , billing_email = github . GithubObject . NotSet , blog = github . GithubObject . NotSet , company = github . GithubObject . NotSet , description = github . GithubObject . NotSet , email = github . GithubObject . NotSet , location = github . GithubObject . NotSet , name = github . GithubObject . NotSet ...
assert billing_email is github . GithubObject . NotSet or isinstance ( billing_email , ( str , unicode ) ) , billing_email assert blog is github . GithubObject . NotSet or isinstance ( blog , ( str , unicode ) ) , blog assert company is github . GithubObject . NotSet or isinstance ( company , ( str , unicode ) ) , comp...
def wrap_connection_loader__get ( name , * args , ** kwargs ) : """While the strategy is active , rewrite connection _ loader . get ( ) calls for some transports into requests for a compatible Mitogen transport ."""
if name in ( 'docker' , 'kubectl' , 'jail' , 'local' , 'lxc' , 'lxd' , 'machinectl' , 'setns' , 'ssh' ) : name = 'mitogen_' + name return connection_loader__get ( name , * args , ** kwargs )
def get_command_completers ( self , namespace , command ) : # type : ( str , str ) - > CompletionInfo """Returns the completer method associated to the given command , or None : param namespace : The command name space . : param command : The shell name of the command : return : A CompletionConfiguration obje...
# Find the method ( can raise a KeyError ) method = self . _commands [ namespace ] [ command ] # Return the completer , if any return getattr ( method , ATTR_COMPLETERS , None )
def get_stat ( self , obj_name , stat_name ) : """: param obj _ name : requested object name . : param stat _ name : requested statistics name . : return : str , the value of the requested statics for the requested object ."""
return self . statistics [ obj_name ] [ self . captions . index ( stat_name ) ]
def select_month ( self , month ) : """选择月份 @2018/06/03 pandas 的索引问题导致 https : / / github . com / pandas - dev / pandas / issues / 21299 因此先用set _ index去重做一次index 影响的有selects , select _ time , select _ month , get _ bar @2018/06/04 当选择的时间越界 / 股票不存在 , raise ValueError @2018/06/04 pandas索引问题已经解决 全部恢复"...
def _select_month ( month ) : return self . data . loc [ month , slice ( None ) ] try : return self . new ( _select_month ( month ) , self . type , self . if_fq ) except : raise ValueError ( 'QA CANNOT GET THIS Month {} ' . format ( month ) )
def from_str ( date ) : """Given a date in the format : Jan , 21st . 2015 will return a datetime of it ."""
month = date [ : 3 ] [ 0 ] + date [ : 3 ] [ - 2 : ] . lower ( ) if month not in NAMED_MONTHS : raise CanNotFormatError ( 'Month not recognized' ) date = date . replace ( ',' , '' ) . replace ( ' ' , '' ) . replace ( '.' , '' ) try : day_unit = [ x for x in [ 'st' , 'rd' , 'nd' , 'th' ] if x in date ] [ 0 ] ...
def max ( cls , x : 'TensorFluent' , y : 'TensorFluent' ) -> 'TensorFluent' : '''Returns a TensorFluent for the maximum function . TensorFluent Args : x : The first operand . y : The second operand . Returns : A TensorFluent wrapping the maximum function .'''
return cls . _binary_op ( x , y , tf . maximum , tf . float32 )
def voxelize_ray ( mesh , pitch , per_cell = [ 2 , 2 ] , ** kwargs ) : """Voxelize a mesh using ray queries . Parameters mesh : Trimesh object Mesh to be voxelized pitch : float Length of voxel cube per _ cell : ( 2 , ) int How many ray queries to make per cell Returns voxels : ( n , 3 ) int Vox...
# how many rays per cell per_cell = np . array ( per_cell ) . astype ( np . int ) . reshape ( 2 ) # edge length of cube voxels pitch = float ( pitch ) # create the ray origins in a grid bounds = mesh . bounds [ : , : 2 ] . copy ( ) # offset start so we get the requested number per cell bounds [ 0 ] += pitch / ( 1.0 + p...
def _compile_schema ( self , schema ) : """Compile another schema"""
assert self . matcher == schema . matcher self . name = schema . name self . compiled_type = schema . compiled_type return schema . compiled
def name ( self , name ) : """Set the enum name ."""
success = idaapi . set_enum_name ( self . eid , name ) if not success : raise exceptions . CantRenameEnum ( "Cant rename enum {!r} to {!r}." . format ( self . name , name ) )
def index ( self , value : Any ) -> int : """Returns the index in the handlers list that matches the given value . If no condition matches , ValueError is raised ."""
for i , cond in ( ( j [ 0 ] , j [ 1 ] [ 0 ] ) for j in enumerate ( self . handlers ) ) : try : match = cond ( value ) except : if self . raiseconditionerrors : raise match = False if match : return i raise TypedloadValueError ( 'Unable to dump %s' % value , value ...
def _deploy_tripleo_heat_templates ( self , stack , parsed_args ) : """Deploy the fixed templates in TripleO Heat Templates"""
clients = self . app . client_manager network_client = clients . network parameters = self . _update_paramaters ( parsed_args , network_client , stack ) utils . check_nodes_count ( self . app . client_manager . rdomanager_oscplugin . baremetal ( ) , stack , parameters , { 'ControllerCount' : 1 , 'ComputeCount' : 1 , 'O...
def _objective_function_subject ( self , data_align , data_sup , labels , w , s , theta , bias ) : """Compute the objective function for one subject . . . math : : ( 1 - C ) * Loss _ { SRM } _ i ( W _ i , S ; X _ i ) . . math : : + C / \\ gamma * Loss _ { MLR _ i } ( \\ theta , bias ; { ( W _ i ^ T * Z _ i , y ...
# Compute the SRM loss f_val = 0.0 samples = data_align . shape [ 1 ] f_val += ( 1 - self . alpha ) * ( 0.5 / samples ) * np . linalg . norm ( data_align - w . dot ( s ) , 'fro' ) ** 2 # Compute the MLR loss f_val += self . _loss_lr_subject ( data_sup , labels , w , theta , bias ) return f_val