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def utf82unicode ( value ) : try : return value . decode ( "utf8" ) except Exception as e : if not _Log : _late_import ( ) if not is_binary ( value ) : _Log . error ( "Can not convert {{type}} to unicode because it's not bytes" , type = type ( value ) . __name__ ) e = _Except . wrap ( e ) for i , c in enumerate ( value...
WITH EXPLANATION FOR FAILURE
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def setModel ( self , model ) : self . stimModel = model self . parameterModel = model . autoParams ( ) tone = self . stimModel . data ( self . stimModel . index ( 0 , 0 ) , QtCore . Qt . UserRole + 1 ) info = tone . auto_details ( ) fmax = info [ 'frequency' ] [ 'max' ] self . ui . freqStartSpnbx . setMaximum ( fmax )...
Sets the QStimulusModel for this editor
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def setStimDuration ( self ) : duration = self . ui . durSpnbx . value ( ) self . tone . setDuration ( duration )
Sets the duration of the StimulusModel from values pulled from this widget
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def setStimReps ( self ) : reps = self . ui . nrepsSpnbx . value ( ) self . stimModel . setRepCount ( reps )
Sets the reps of the StimulusModel from values pulled from this widget
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def setStimRisefall ( self ) : rf = self . ui . risefallSpnbx . value ( ) self . tone . setRisefall ( rf )
Sets the Risefall of the StimulusModel s tone from values pulled from this widget
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def add_arguments ( self , parser , bootstrap = False ) : [ item . add_argument ( parser , bootstrap ) for item in self . _get_items ( bootstrap = False ) ]
Adds all items to the parser passed in .
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def add_source ( self , label , source_type , ** kwargs ) : self . _sources [ label ] = get_source ( label , source_type , ** kwargs )
Add a source to the spec .
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def find_item ( self , fq_name ) : names = fq_name . split ( self . _separator ) current = self . _yapconf_items for name in names : if isinstance ( current , ( YapconfDictItem , YapconfListItem ) ) : current = current . children if name not in current : return None current = current [ name ] return current
Find an item in the specification by fully qualified name .
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def get_item ( self , name , bootstrap = False ) : for item in self . _get_items ( bootstrap ) : if item . name == name : return item return None
Get a particular item in the specification .
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def update_defaults ( self , new_defaults , respect_none = False ) : for key , value in six . iteritems ( new_defaults ) : item = self . get_item ( key ) if item is None : raise YapconfItemNotFound ( "Cannot update default for {0}, " "there is no config item by the " "name of {1}" . format ( key , key ) , None ) item ....
Update items defaults to the values in the new_defaults dict .
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def generate_documentation ( self , app_name , ** kwargs ) : output_file = kwargs . get ( 'output_file_name' ) encoding = kwargs . get ( 'encoding' , 'utf-8' ) doc_string = generate_markdown_doc ( app_name , self ) if output_file : with open ( output_file , 'w' , encoding = encoding ) as doc_file : doc_file . write ( d...
Generate documentation for this specification .
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def load_config ( self , * args , ** kwargs ) : bootstrap = kwargs . get ( 'bootstrap' , False ) overrides = self . _generate_overrides ( * args ) config = self . _generate_config_from_overrides ( overrides , bootstrap ) return Box ( config )
Load a config based on the arguments passed in .
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def spawn_watcher ( self , label , target = None , eternal = False ) : if label not in self . _sources : raise YapconfSourceError ( 'Cannot watch %s no source named %s' % ( label , label ) ) current_config = self . _sources [ label ] . get_data ( ) handler = ConfigChangeHandler ( current_config , self , target ) return...
Spawns a config watcher in a separate daemon thread .
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def migrate_config_file ( self , config_file_path , always_update = False , current_file_type = None , output_file_name = None , output_file_type = None , create = True , update_defaults = True , dump_kwargs = None , include_bootstrap = True , ) : current_file_type = current_file_type or self . _file_type output_file_t...
Migrates a configuration file .
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def refractory ( times , refract = 0.002 ) : times_refract = [ ] times_refract . append ( times [ 0 ] ) for i in range ( 1 , len ( times ) ) : if times_refract [ - 1 ] + refract <= times [ i ] : times_refract . append ( times [ i ] ) return times_refract
Removes spikes in times list that do not satisfy refractor period
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def spike_times ( signal , threshold , fs , absval = True ) : times = [ ] if absval : signal = np . abs ( signal ) over , = np . where ( signal > threshold ) segments , = np . where ( np . diff ( over ) > 1 ) if len ( over ) > 1 : if len ( segments ) == 0 : segments = [ 0 , len ( over ) - 1 ] else : if segments [ 0 ] !...
Detect spikes from a given signal
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def bin_spikes ( spike_times , binsz ) : bins = np . empty ( ( len ( spike_times ) , ) , dtype = int ) for i , stime in enumerate ( spike_times ) : bins [ i ] = np . floor ( np . around ( stime / binsz , 5 ) ) return bins
Sort spike times into bins
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def spike_latency ( signal , threshold , fs ) : over , = np . where ( signal > threshold ) segments , = np . where ( np . diff ( over ) > 1 ) if len ( over ) > 1 : if len ( segments ) == 0 : idx = over [ 0 ] + np . argmax ( signal [ over [ 0 ] : over [ - 1 ] ] ) latency = float ( idx ) / fs elif segments [ 0 ] == 0 : l...
Find the latency of the first spike over threshold
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def firing_rate ( spike_times , window_size = None ) : if len ( spike_times ) == 0 : return 0 if window_size is None : if len ( spike_times ) > 1 : window_size = spike_times [ - 1 ] - spike_times [ 0 ] elif len ( spike_times ) > 0 : window_size = 1 else : window_size = 0 rate = window_size / len ( spike_times ) return ...
Calculate the firing rate of spikes
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def evaluate_rules ( self ) : outputs = defaultdict ( list ) total_rules = len ( self . _rules ) for rule in self . _rules : res = rule . evaluate ( self . _variables ) outputs [ res [ 'term' ] ] . append ( [ res [ 'weight' ] , res [ 'output' ] ] ) return_values = { } for k , v in outputs . items ( ) : num = sum ( map ...
Perform Sugeno inference .
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def is_complete ( self ) : qstat = self . _grep_qstat ( 'complete' ) comp = self . _grep_status ( 'complete' ) if qstat and comp : return True return False
Checks the job s output or log file to determing if the completion criteria was met .
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def initiate ( mw_uri , consumer_token , callback = 'oob' , user_agent = defaults . USER_AGENT ) : auth = OAuth1 ( consumer_token . key , client_secret = consumer_token . secret , callback_uri = callback ) r = requests . post ( url = mw_uri , params = { 'title' : "Special:OAuth/initiate" } , auth = auth , headers = { '...
Initiate an oauth handshake with MediaWiki .
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def configure ( * args , ** kwargs ) : global _stats_client log . debug ( 'statsd.configure(%s)' % kwargs ) _config . update ( kwargs ) _stats_client = _create_client ( ** _config )
Configure the module level statsd client that will be used in all library operations .
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def incr ( name , value = 1 , rate = 1 , tags = None ) : client ( ) . incr ( name , value , rate , tags )
Increment a metric by value .
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def decr ( name , value = 1 , rate = 1 , tags = None ) : client ( ) . decr ( name , value , rate , tags )
Decrement a metric by value .
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def gauge ( name , value , rate = 1 , tags = None ) : client ( ) . gauge ( name , value , rate , tags )
Set the value for a gauge .
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def timing ( name , delta , rate = 1 , tags = None ) : return client ( ) . timing ( name , delta , rate = rate , tags = tags )
Sends new timing information . delta is in milliseconds .
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def list_pages ( self , request , template_name = None , extra_context = None ) : if not self . admin_site . has_permission ( request ) : return self . admin_site . login ( request ) language = get_language_from_request ( request ) query = request . POST . get ( 'q' , '' ) . strip ( ) if query : page_ids = list ( set (...
List root pages
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def codingthreads ( self ) : printtime ( 'Extracting CDS features' , self . start ) for i in range ( self . cpus ) : threads = Thread ( target = self . codingsequences , args = ( ) ) threads . setDaemon ( True ) threads . start ( ) for sample in self . runmetadata . samples : self . codingqueue . put ( sample ) self . ...
Find CDS features in . gff files to filter out non - coding sequences from the analysis
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def corethreads ( self ) : printtime ( 'Creating CDS files and finding core genes' , self . start ) for i in range ( self . cpus ) : threads = Thread ( target = self . coregroups , args = ( ) ) threads . setDaemon ( True ) threads . start ( ) for sample in self . runmetadata . samples : sample . prokka . cds = os . pat...
Create a . cds file consisting of fasta records of CDS features for each strain
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def corewriter ( self ) : printtime ( 'Creating core allele files' , self . start ) for gene in sorted ( self . genesequence ) : self . geneset . add ( gene ) genefile = os . path . join ( self . coregenelocation , '{}.fasta' . format ( gene ) ) if not os . path . isfile ( genefile ) : with open ( genefile , 'w' ) as c...
Creates . fasta files containing all alleles for each gene
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def profiler ( self ) : printtime ( 'Calculating core profiles' , self . start ) for strain in self . corealleles : self . coreset . add ( tuple ( sorted ( self . corealleles [ strain ] . items ( ) ) ) ) header = 'ST,{}\n' . format ( ',' . join ( sorted ( self . geneset ) ) ) data = '' for count , core in sorted ( enum...
Calculates the core profile for each strain
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def linker ( self ) : strainprofile = os . path . join ( self . profilelocation , 'strainprofiles.txt' ) if not os . path . isfile ( strainprofile ) : header = 'Strain,SequenceType\n' data = '' sortedprofiles = sorted ( self . profiles . items ( ) , key = operator . itemgetter ( 1 ) ) for strain , seqtype in sortedprof...
Link the sequence types to the strains . Create a . csv file of the linkages
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def get ( self , index ) : assert index <= self . count assert index < self . size offset = index * self . chunk_size return self . data [ offset : offset + self . chunk_size ]
Get a chunk by index
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def new ( self , init = None ) : if self . count >= self . size : self . resize ( self . count * 2 ) chunk = self . get ( self . count ) if init is not None : assert len ( init ) == self . chunk_size chunk [ 0 : self . chunk_size ] = init self . count += 1 return chunk
Return the last currently unused chunk resizing if needed .
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def resize ( self , new_size ) : assert new_size > self . size new_data = self . _allocate ( new_size ) new_data [ 0 : self . size * self . chunk_size ] = self . data self . size = new_size self . data = new_data
Create a new larger array and copy data over
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def remove ( self , index ) : assert index < self . count last_index = self . count - 1 data = self . get ( index ) if index == last_index : last_data = data moved = None else : last_data = self . get ( last_index ) data [ 0 : self . chunk_size ] = last_data moved = last_index last_data [ 0 : self . chunk_size ] = [ 0 ...
Remove chunk at index .
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def create_turtle ( self , id , shape , model_init , color_init ) : assert id not in self . id_to_shape data = self . _create_turtle ( id , shape , model_init , color_init ) self . id_to_shape [ id ] = shape return data
Create a slice of memory for turtle data storage
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def set_shape ( self , id , new_shape ) : old_shape = self . id_to_shape [ id ] old_buffer = self . get_buffer ( old_shape ) model , color = old_buffer . get ( id ) new_data = self . _create_turtle ( id , new_shape , model , color ) old_buffer . remove ( id ) self . id_to_shape [ id ] = new_shape return new_data
Copies the turtle data from the old shape buffer to the new
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def get_checksum_by_target ( self , target ) : for csum in self . checksums : if csum . target == target : return csum return None
returns a checksum of a specific kind
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def add_checksum ( self , csum ) : for csum_tmp in self . checksums : if csum_tmp . target == csum . target : self . checksums . remove ( csum_tmp ) break self . checksums . append ( csum )
Add a checksum to a release object
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def get_image_by_kind ( self , kind ) : for ss in self . images : if ss . kind == kind : return ss return None
returns a image of a specific kind
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def add_image ( self , im ) : for im_tmp in self . images : if im_tmp . kind == im . kind : self . images . remove ( im_tmp ) break self . images . append ( im )
Add a image to a screenshot object
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def add_screenshot ( self , screenshot ) : if screenshot in self . screenshots : return self . screenshots . append ( screenshot )
Add a screenshot object if it does not already exist
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def add_provide ( self , provide ) : for p in self . provides : if p . value == provide . value : return self . provides . append ( provide )
Add a provide object if it does not already exist
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def get_provides_by_kind ( self , kind ) : provs = [ ] for p in self . provides : if p . kind == kind : provs . append ( p ) return provs
Returns an array of provides of a certain kind
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def add_require ( self , require ) : for p in self . requires : if p . value == require . value : return self . requires . append ( require )
Add a require object if it does not already exist
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def get_require_by_kind ( self , kind , value ) : for r in self . requires : if r . kind == kind and r . value == value : return r return None
Returns a requires object of a specific value
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def to_file ( self , filename ) : xml = self . to_xml ( ) f = gzip . open ( filename , 'wb' ) try : f . write ( xml . encode ( 'utf-8' ) ) finally : f . close ( )
Save the store to disk
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def from_file ( self , filename ) : with gzip . open ( filename , 'rb' ) as f : self . parse ( f . read ( ) )
Open the store from disk
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def get_components ( self ) : components = [ ] for app_id in self . components : components . append ( self . components [ app_id ] ) return components
Returns all the applications from the store
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def add ( self , component ) : old = self . get_component ( component . id ) if old : old . releases . extend ( component . releases ) return self . components [ component . id ] = component
Add component to the store
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def row2dict ( row , depth = None , exclude = None , exclude_pk = None , exclude_underscore = None , only = None , fk_suffix = None ) : if depth == 0 : return None d , mapper = { } , get_mapper ( row ) if depth is None : depth = getattr ( row , ATTR_DEPTH , DEFAULT_DEPTH ) - 1 else : depth -= 1 if exclude is None : exc...
Recursively walk row attributes to serialize ones into a dict .
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def dict2row ( d , model , rel = None , exclude = None , exclude_pk = None , exclude_underscore = None , only = None , fk_suffix = None ) : if not isinstance ( d , dict ) : raise TypeError ( 'Source must be instance of dict, got %s instead' % type ( d ) . __name__ ) row = model ( ) mapper = get_mapper ( row ) if rel is...
Recursively walk dict attributes to serialize ones into a row .
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def copy_file ( source , destination , follow_symlinks = True , template : arg ( type = bool_or ( str ) , choices = ( 'format' , 'string' ) ) = False , context = None ) : if not template : return shutil . copy ( source , destination , follow_symlinks = follow_symlinks ) if os . path . isdir ( destination ) : destinatio...
Copy source file to destination .
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def git_version ( short : 'Get short hash' = True , show : 'Print version to stdout' = False ) : result = local ( [ 'git' , 'rev-parse' , '--is-inside-work-tree' ] , stdout = 'hide' , stderr = 'hide' , echo = False , raise_on_error = False ) if not result : return None result = local ( [ 'git' , 'describe' , '--exact-m...
Get tag associated with HEAD ; fall back to SHA1 .
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def remote ( cmd : arg ( container = list ) , host , user = None , port = None , sudo = False , run_as = None , shell = '/bin/sh' , cd = None , environ : arg ( container = dict ) = None , paths = ( ) , stdout : arg ( type = StreamOptions ) = None , stderr : arg ( type = StreamOptions ) = None , echo = False , raise_on_...
Run a remote command via SSH .
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def sync ( source , destination , host , user = None , sudo = False , run_as = None , options = ( '-rltvz' , '--no-perms' , '--no-group' ) , excludes = ( ) , exclude_from = None , delete = False , dry_run = False , mode = 'u=rwX,g=rwX,o=' , quiet = True , pull = False , stdout : arg ( type = StreamOptions ) = None , st...
Sync files using rsync .
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def _get_mean_and_median ( hist : Hist ) -> Tuple [ float , float ] : x = ctypes . c_double ( 0 ) q = ctypes . c_double ( 0.5 ) hist . ComputeIntegral ( ) hist . GetQuantiles ( 1 , x , q ) mean = hist . GetMean ( ) return ( mean , x . value )
Retrieve the mean and median from a ROOT histogram .
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def _project_to_part_level ( hist : Hist , outliers_removal_axis : OutliersRemovalAxis ) -> Hist : import ROOT if isinstance ( hist , ( ROOT . TH2 , ROOT . TH3 ) ) : projection_information : Dict [ str , Any ] = { } output_object = _OutputObject ( None ) projector = projectors . HistProjector ( observable_to_project_fr...
Project the input histogram to the particle level axis .
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def _determine_outliers_index ( hist : Hist , moving_average_threshold : float = 1.0 , number_of_values_to_search_ahead : int = 5 , limit_of_number_of_values_below_threshold : int = None ) -> int : import ROOT if isinstance ( hist , ( ROOT . TH2 , ROOT . TH3 , ROOT . THnBase ) ) : raise ValueError ( f"Given histogram '...
Determine the location of where outliers begin in a 1D histogram .
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def _determine_outliers_for_moving_average ( moving_average : np . ndarray , moving_average_threshold : float , number_of_values_to_search_ahead : int , limit_of_number_of_values_below_threshold : int ) -> int : below_threshold = moving_average < moving_average_threshold values_to_check = [ ] for i in range ( limit_of_...
Determine outliers to remove from a given moving average .
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def _remove_outliers_from_hist ( hist : Hist , outliers_start_index : int , outliers_removal_axis : OutliersRemovalAxis ) -> None : if outliers_start_index > 0 : x = ctypes . c_int ( 0 ) y = ctypes . c_int ( 0 ) z = ctypes . c_int ( 0 ) outliers_removal_axis_values : Dict [ OutliersRemovalAxis , ctypes . c_int ] = { pr...
Remove outliers from a given histogram .
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def shapefile ( self , file ) : driver = ogr . GetDriverByName ( 'ESRI Shapefile' ) dataset = driver . Open ( file ) if dataset is not None : layer = dataset . GetLayer ( ) spatialRef = layer . GetSpatialRef ( ) feature = layer . GetNextFeature ( ) geom = feature . GetGeometryRef ( ) spatialRef = geom . GetSpatialRefer...
reprojette en WGS84 et recupere l extend
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def set_comment ( self , cellid , comment ) : info = { 'cellid' : cellid , 'comment' : comment } self . datafile . set_metadata ( self . current_dataset_name , info )
Saves the provided comment to the current dataset .
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def main ( argument , sets , big_endian , optimal , output , clipboard , quiet , verbose ) : logger = logging . getLogger ( ) handler = logging . StreamHandler ( sys . stderr ) handler . setFormatter ( LevelFormatter ( ) ) logger . addHandler ( handler ) logger . setLevel ( logging . WARNING + ( quiet - verbose ) * 10 ...
Customizable Lazy Exploit Pattern Utility .
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def mousePressEvent ( self , event ) : if event . x ( ) < 50 : super ( PlotMenuBar , self ) . mousePressEvent ( event ) else : event . ignore ( )
Marshalls behaviour depending on location of the mouse click
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def add ( self , command_template , job_class ) : job = JobTemplate ( command_template . alias , command_template = command_template , depends_on = command_template . depends_on , queue = self . queue , job_class = job_class ) self . queue . push ( job )
Given a command template add it as a job to the queue .
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def run ( self ) : iterations = 0 queue = self . queue . tick ( ) while True : try : next ( queue ) except StopIteration : break iterations += 1 sleep ( self . sleep_time ) return iterations
Begins the runtime execution .
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def make_dynamic_class ( typename , field_names ) : if isinstance ( field_names , basestring ) : field_names = field_names . replace ( "," , " " ) . split ( ) field_names = map ( str , field_names ) safe_fields_names = map ( _encode_property_name , field_names ) attr = dict ( ( safe_name , _property ( name ) ) for name...
a factory function to create type dynamically
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def get_memory_usage ( ) : process = psutil . Process ( os . getpid ( ) ) mem = process . memory_info ( ) . rss return mem / ( 1024 * 1024 )
Gets RAM memory usage
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def create_db ( file_pth ) : conn = sqlite3 . connect ( file_pth ) c = conn . cursor ( ) c . execute ( 'DROP TABLE IF EXISTS library_spectra_source' ) c . execute ( ) c . execute ( 'DROP TABLE IF EXISTS metab_compound' ) c . execute ( ) c . execute ( 'DROP TABLE IF EXISTS library_spectra_meta' ) c . execute ( ) c . exe...
Create an empty SQLite database for library spectra .
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def get_connection ( db_type , db_pth , user = None , password = None , name = None ) : if db_type == 'sqlite' : print ( db_pth ) conn = sqlite3 . connect ( db_pth ) elif db_type == 'mysql' : import mysql . connector conn = mysql . connector . connect ( user = user , password = password , database = name ) elif db_type...
Get a connection to a SQL database . Can be used for SQLite MySQL or Django MySQL database
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def db_dict ( c ) : db_d = { } c . execute ( 'SELECT * FROM library_spectra' ) db_d [ 'library_spectra' ] = [ list ( row ) for row in c ] c . execute ( 'SELECT * FROM library_spectra_meta' ) db_d [ 'library_spectra_meta' ] = [ list ( row ) for row in c ] c . execute ( 'SELECT * FROM library_spectra_annotation' ) db_d [...
Get a dictionary of the library spectra from a database
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def insert_query_m ( data , table , conn , columns = None , db_type = 'mysql' ) : if len ( data ) > 10000 : _chunk_query ( data , 10000 , columns , conn , table , db_type ) else : if db_type == 'sqlite' : type_sign = '?' else : type_sign = '%s' type_com = type_sign + ", " type = type_com * ( len ( data [ 0 ] ) - 1 ) ty...
Insert python list of tuples into SQL table
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def _chunk_query ( l , n , cn , conn , table , db_type ) : [ insert_query_m ( l [ i : i + n ] , table , conn , cn , db_type ) for i in range ( 0 , len ( l ) , n ) ]
Call for inserting SQL query in chunks based on n rows
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async def send ( from_addr , to_addrs , subject = "Ellis" , msg = "" , ** kwargs ) : async with SMTP ( ) as client : msg = "Subject: {0}\n\n{1}" . format ( subject , msg ) if kwargs : values = "\n" . join ( [ "{0}: {1}" . format ( k , v ) for k , v in kwargs . items ( ) ] ) msg = ( "{0}\n\nThe following variables have ...
Sends an e - mail to the provided address .
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def show_correlation_matrix ( self , correlation_matrix ) : cr_plot . create_correlation_matrix_plot ( correlation_matrix , self . title , self . headers_to_test ) pyplot . show ( )
Shows the given correlation matrix as image
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def save_to_file ( self , out_file ) : correlation_matrix = self . get_correlation_matrix_from_columns ( ) cr_plot . create_correlation_matrix_plot ( correlation_matrix , self . title , self . headers_to_test ) fig = pyplot . gcf ( ) fig . set_size_inches ( 23.4 , 23.4 ) pyplot . savefig ( out_file , dpi = 120 )
Saves correlation matrix of selected headers
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def save_correlation_matrix_from_folder ( folder_path ) : file_name = "output-" + str ( int ( time . time ( ) ) ) output_folder = os . path . join ( folder_path , file_name ) os . makedirs ( output_folder ) for file in list_content ( folder_path , False , False ) : if is_file ( file ) and str ( file ) . endswith ( "csv...
Saves each file s correlation matrix of common headers
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def run ( self , * args , ** kwargs ) : pm = MayaPluginManager . get ( ) guerilla = pm . get_plugin ( "GuerillaMGMT" ) mayawin = maya_main_window ( ) guerilla . run ( parent = mayawin )
Start the tool
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def login_github ( token_path = None , token = None ) : token = codetools . github_token ( token_path = token_path , token = token ) g = Github ( token ) debug_ratelimit ( g ) return g
Log into GitHub using an existing token .
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def find_tag_by_name ( repo , tag_name , safe = True ) : tagfmt = 'tags/{ref}' . format ( ref = tag_name ) try : ref = repo . get_git_ref ( tagfmt ) if ref and ref . ref : return ref except github . UnknownObjectException : if not safe : raise return None
Find tag by name in a github Repository
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def debug_ratelimit ( g ) : assert isinstance ( g , github . MainClass . Github ) , type ( g ) debug ( "github ratelimit: {rl}" . format ( rl = g . rate_limiting ) )
Log debug of github ratelimit information from last API call
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def get_default_ref ( repo ) : assert isinstance ( repo , github . Repository . Repository ) , type ( repo ) default_branch = repo . default_branch default_branch_ref = "heads/{ref}" . format ( ref = default_branch ) try : head = repo . get_git_ref ( default_branch_ref ) except github . RateLimitExceededException : rai...
Return a github . GitRef object for the HEAD of the default branch .
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def main ( argv = None ) : t = CrfTokenizer ( ) print t . tokenize ( "This is a sentence." ) print t . tokenize ( "Buy???This...Now!!!" ) print t . tokenize ( "The <bold>only</bold> source." ) print t . tokenize ( "The<bold>only</bold>source." ) print t . tokenize ( "Big&gt;little." ) print t . tokenize ( "Big & little...
this is called if run from command line
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def verifyInputs ( self , mode ) : if len ( self . _aichans ) < 1 : failmsg = "Must have at least one input channel selected" QtGui . QMessageBox . warning ( self , "Invalid Setting" , failmsg ) return False if mode == 'chart' : if self . ui . aifsSpnbx . value ( ) * self . fscale > 100000 : QtGui . QMessageBox . warni...
Goes through and checks all stimuli and input settings are valid and consistent . Prompts user with a message if there is a condition that would prevent acquisition .
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def updateUnitLabels ( self , tscale , fscale ) : AbstractEditorWidget . updateScales ( tscale , fscale ) SmartDelegate . updateScales ( tscale , fscale ) AbstractEditorWidget . purgeDeletedWidgets ( ) self . tscale = tscale time_inputs = self . timeInputs + AbstractEditorWidget . tunit_fields for field in time_inputs ...
When the GUI unit scale changes it is neccessary to update the unit labels on all fields throughout the GUI . This handles The main window and also notifys other windows to update
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def reset_device_channels ( self ) : self . ui . aochanBox . clear ( ) devname = self . advanced_options [ 'device_name' ] device_list = get_devices ( ) if devname in device_list : cnames = get_ao_chans ( devname ) self . ui . aochanBox . addItems ( cnames ) cnames = get_ai_chans ( devname ) self . _aichans = [ chan fo...
Updates the input channel selection boxes based on the current device name stored in this object
16,089
def saveInputs ( self , fname ) : if not fname : return appdir = systools . get_appdir ( ) if not os . path . isdir ( appdir ) : os . makedirs ( appdir ) fname = os . path . join ( appdir , fname ) savedict = { } savedict [ 'binsz' ] = self . ui . binszSpnbx . value ( ) savedict [ 'aifs' ] = self . ui . aifsSpnbx . val...
Save the values in the input fields so they can be loaded next time the GUI is run
16,090
def closeEvent ( self , event ) : self . acqmodel . stop_listening ( ) self . saveInputs ( self . inputsFilename ) settings = QtCore . QSettings ( "audiolab" ) settings . setValue ( "geometry" , self . saveGeometry ( ) ) settings . setValue ( "windowState" , self . saveState ( ) ) logger = logging . getLogger ( 'main' ...
Closes listening threads and saves GUI data for later use .
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def ordered_async_call ( func_list ) : def worker ( function , f_args , f_kwargs , queue , index ) : response = { 'index' : index , 'data' : None , 'error' : None } try : response [ 'data' ] = function ( * f_args , ** f_kwargs ) except Exception as e : response [ 'error' ] = e queue . put ( response ) queue = Queue ( )...
Runs the list of function asynchronously returns the response maintaining the order
16,092
def add_params_to_url ( url , params ) : url_parts = list ( urlparse . urlparse ( url ) ) query = dict ( urlparse . parse_qsl ( url_parts [ 4 ] ) ) query . update ( params ) url_parts [ 4 ] = urlencode ( query ) return urlparse . urlunparse ( url_parts )
Adds params to url
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def is_internet_on ( host = "8.8.8.8" , port = 53 , timeout = 3 ) : socket . setdefaulttimeout ( timeout ) socket . socket ( socket . AF_INET , socket . SOCK_STREAM ) . connect ( ( host , port ) )
Checks if machine has internet connection
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def wait_until_internet ( time_between_attempts = 3 , max_attempts = 10 ) : counter = 0 while not is_internet_on ( ) : time . sleep ( time_between_attempts ) counter += 1 if counter > max_attempts : return False return True
Waits until machine has internet
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def transform_key ( startkey , seed_key , seed_rand , rounds ) : masterkey = startkey aes = AES . new ( seed_key , AES . MODE_ECB ) for _i in range ( rounds ) : masterkey = aes . encrypt ( masterkey ) masterkey = hashlib . sha256 ( masterkey ) . digest ( ) return hashlib . sha256 ( seed_rand + masterkey ) . digest ( )
This method creates the key to decrypt the database .
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def complete ( command_line , current_token , position , shell : arg ( choices = ( 'bash' , 'fish' ) ) ) : position = int ( position ) tokens = shlex . split ( command_line [ : position ] ) all_argv , run_argv , command_argv = run . partition_argv ( tokens [ 1 : ] ) run_args = run . parse_args ( run_argv ) module = run...
Find completions for current command .
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def install_package ( self , name , index = None , force = False , update = False ) : cmd = 'install' if force : cmd = '{0} {1}' . format ( cmd , '--force-reinstall' ) if update : cmd = '{0} {1}' . format ( cmd , '--update' ) if index : cmd = '{0} {1}' . format ( cmd , '--index-url {0}' . format ( index ) ) self . pip ...
Install a given package .
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def install_requirements ( self , path , index = None ) : cmd = 'install -r {0}' . format ( path ) if index : cmd = 'install --index-url {0} -r {1}' . format ( index , path ) self . pip ( cmd )
Install packages from a requirements . txt file .
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def get_next ( weekday , including_today = False ) : now = datetime . datetime . now ( ) if now . weekday ( ) == weekday . value and including_today : delta = datetime . timedelta ( days = 0 ) elif now . weekday ( ) == weekday . value and not including_today : delta = datetime . timedelta ( days = 7 ) else : delta = da...
Gets next day of week