idx int64 0 63k | question stringlengths 61 4.03k | target stringlengths 6 1.23k |
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3,800 | def edit_message ( current ) : current . output = { 'status' : 'OK' , 'code' : 200 } in_msg = current . input [ 'message' ] try : msg = Message ( current ) . objects . get ( sender_id = current . user_id , key = in_msg [ 'key' ] ) msg . body = in_msg [ 'body' ] msg . save ( ) except ObjectDoesNotExist : raise HTTPError... | Edit a message a user own . |
3,801 | def flag_message ( current ) : current . output = { 'status' : 'Created' , 'code' : 201 } FlaggedMessage . objects . get_or_create ( user_id = current . user_id , message_id = current . input [ 'key' ] ) | Flag inappropriate messages |
3,802 | def unflag_message ( current ) : current . output = { 'status' : 'OK' , 'code' : 200 } FlaggedMessage ( current ) . objects . filter ( user_id = current . user_id , message_id = current . input [ 'key' ] ) . delete ( ) | remove flag of a message |
3,803 | def get_message_actions ( current ) : current . output = { 'status' : 'OK' , 'code' : 200 , 'actions' : Message . objects . get ( current . input [ 'key' ] ) . get_actions_for ( current . user ) } | Returns applicable actions for current user for given message key |
3,804 | def add_to_favorites ( current ) : msg = Message . objects . get ( current . input [ 'key' ] ) current . output = { 'status' : 'Created' , 'code' : 201 } fav , new = Favorite . objects . get_or_create ( user_id = current . user_id , message = msg ) current . output [ 'favorite_key' ] = fav . key | Favorite a message |
3,805 | def remove_from_favorites ( current ) : try : current . output = { 'status' : 'OK' , 'code' : 200 } Favorite ( current ) . objects . get ( user_id = current . user_id , key = current . input [ 'key' ] ) . delete ( ) except ObjectDoesNotExist : raise HTTPError ( 404 , "" ) | Remove a message from favorites |
3,806 | def list_favorites ( current ) : current . output = { 'status' : 'OK' , 'code' : 200 , 'favorites' : [ ] } query_set = Favorite ( current ) . objects . filter ( user_id = current . user_id ) if current . input [ 'channel_key' ] : query_set = query_set . filter ( channel_id = current . input [ 'channel_key' ] ) current ... | List user s favorites . If channel_key given will return favorites belong to that channel . |
3,807 | def get_or_create_direct_channel ( cls , initiator_key , receiver_key ) : existing = cls . objects . OR ( ) . filter ( code_name = '%s_%s' % ( initiator_key , receiver_key ) ) . filter ( code_name = '%s_%s' % ( receiver_key , initiator_key ) ) receiver_name = UserModel . objects . get ( receiver_key ) . full_name if ex... | Creates a direct messaging channel between two user |
3,808 | def create_exchange ( self ) : mq_channel = self . _connect_mq ( ) mq_channel . exchange_declare ( exchange = self . code_name , exchange_type = 'fanout' , durable = True ) | Creates MQ exchange for this channel Needs to be defined only once . |
3,809 | def delete_exchange ( self ) : mq_channel = self . _connect_mq ( ) mq_channel . exchange_delete ( exchange = self . code_name ) | Deletes MQ exchange for this channel Needs to be defined only once . |
3,810 | def get_channel_listing ( self ) : return { 'name' : self . name , 'key' : self . channel . key , 'type' : self . channel . typ , 'read_only' : self . read_only , 'is_online' : self . is_online ( ) , 'actions' : self . get_actions ( ) , 'unread' : self . unread_count ( ) } | serialized form for channel listing |
3,811 | def create_exchange ( self ) : channel = self . _connect_mq ( ) channel . exchange_declare ( exchange = self . user . prv_exchange , exchange_type = 'fanout' , durable = True ) | Creates user s private exchange |
3,812 | def serialize ( self , user = None ) : return { 'content' : self . body , 'type' : self . typ , 'updated_at' : self . updated_at , 'timestamp' : self . updated_at , 'is_update' : not hasattr ( self , 'unsaved' ) , 'attachments' : [ attachment . serialize ( ) for attachment in self . attachment_set ] , 'title' : self . ... | Serializes message for given user . |
3,813 | def _republish ( self ) : mq_channel = self . channel . _connect_mq ( ) mq_channel . basic_publish ( exchange = self . channel . key , routing_key = '' , body = json . dumps ( self . serialize ( ) ) ) | Re - publishes updated message |
3,814 | def defaultCrawlId ( ) : timestamp = datetime . now ( ) . isoformat ( ) . replace ( ':' , '_' ) user = getuser ( ) return '_' . join ( ( 'crawl' , user , timestamp ) ) | Provide a reasonable default crawl name using the user name and date |
3,815 | def main ( argv = None ) : global Verbose , Mock if argv is None : argv = sys . argv if len ( argv ) < 5 : die ( 'Bad args' ) try : opts , argv = getopt . getopt ( argv [ 1 : ] , 'hs:p:mv' , [ 'help' , 'server=' , 'port=' , 'mock' , 'verbose' ] ) except getopt . GetoptError as err : print ( err ) die ( ) serverEndpoint... | Run Nutch command using REST API . |
3,816 | def call ( self , verb , servicePath , data = None , headers = None , forceText = False , sendJson = True ) : default_data = { } if sendJson else "" data = data if data else default_data headers = headers if headers else JsonAcceptHeader . copy ( ) if not sendJson : headers . update ( TextSendHeader ) if verb not in Re... | Call the Nutch Server do some error checking and return the response . |
3,817 | def list ( self , allJobs = False ) : jobs = self . server . call ( 'get' , '/job' ) return [ Job ( job [ 'id' ] , self . server ) for job in jobs if allJobs or self . _job_owned ( job ) ] | Return list of jobs at this endpoint . |
3,818 | def _nextJob ( self , job , nextRound = True ) : jobInfo = job . info ( ) assert jobInfo [ 'state' ] == 'FINISHED' roundEnd = False if jobInfo [ 'type' ] == 'INJECT' : nextCommand = 'GENERATE' elif jobInfo [ 'type' ] == 'GENERATE' : nextCommand = 'FETCH' elif jobInfo [ 'type' ] == 'FETCH' : nextCommand = 'PARSE' elif j... | Given a completed job start the next job in the round or return None |
3,819 | def progress ( self , nextRound = True ) : currentJob = self . currentJob if currentJob is None : return currentJob jobInfo = currentJob . info ( ) if jobInfo [ 'state' ] == 'RUNNING' : return currentJob elif jobInfo [ 'state' ] == 'FINISHED' : nextJob = self . _nextJob ( currentJob , nextRound ) self . currentJob = ne... | Check the status of the current job activate the next job if it s finished and return the active job |
3,820 | def nextRound ( self ) : finishedJobs = [ ] if self . currentJob is None : self . currentJob = self . jobClient . create ( 'GENERATE' ) activeJob = self . progress ( nextRound = False ) while activeJob : oldJob = activeJob activeJob = self . progress ( nextRound = False ) if oldJob and oldJob != activeJob : finishedJob... | Execute all jobs in the current round and return when they have finished . |
3,821 | def waitAll ( self ) : finishedRounds = [ self . nextRound ( ) ] while self . currentRound < self . totalRounds : finishedRounds . append ( self . nextRound ( ) ) return finishedRounds | Execute all queued rounds and return when they have finished . |
3,822 | def Jobs ( self , crawlId = None ) : crawlId = crawlId if crawlId else defaultCrawlId ( ) return JobClient ( self . server , crawlId , self . confId ) | Create a JobClient for listing and creating jobs . The JobClient inherits the confId from the Nutch client . |
3,823 | def get ( self , attr , default = None ) : attrs = self . body . get ( 'attributes' ) or { } return attrs . get ( attr , default ) | Get an attribute defined by this session |
3,824 | def get_all ( self , cat ) : return self . _get_from_local_cache ( cat ) or self . _get_from_cache ( cat ) or self . _get_from_db ( cat ) | if data can t found in cache then it will be fetched from db parsed and stored to cache for each lang_code . |
3,825 | def _fill_get_item_cache ( self , catalog , key ) : lang = self . _get_lang ( ) keylist = self . get_all ( catalog ) self . ITEM_CACHE [ lang ] [ catalog ] = dict ( [ ( i [ 'value' ] , i [ 'name' ] ) for i in keylist ] ) return self . ITEM_CACHE [ lang ] [ catalog ] . get ( key ) | get from redis cache locally then return |
3,826 | def run ( self , host , port , debug = True , validate_requests = True ) : if debug : logging . basicConfig ( level = logging . DEBUG ) app = self . create_wsgi_app ( validate_requests ) run_simple ( host , port , app , use_reloader = debug , use_debugger = debug ) | Utility method to quickly get a server up and running . |
3,827 | def dispatch_request ( self , body ) : req_type = body . get ( 'request' , { } ) . get ( 'type' ) session_obj = body . get ( 'session' ) session = Session ( session_obj ) if session_obj else None if req_type == 'LaunchRequest' : return self . launch_fn ( session ) elif req_type == 'IntentRequest' : intent = body [ 'req... | Given a parsed JSON request object call the correct Intent Launch or SessionEnded function . |
3,828 | def intent ( self , intent_name ) : def _decorator ( func ) : arity = func . __code__ . co_argcount if arity not in [ 0 , 2 ] : raise ValueError ( "expected 0 or 2 argument function" ) self . intent_map [ intent_name ] = func return func return _decorator | Decorator to register a handler for the given intent . |
3,829 | def encrypt_password ( self ) : if self . password and not self . password . startswith ( '$pbkdf2' ) : self . set_password ( self . password ) | encrypt password if not already encrypted |
3,830 | def send_client_cmd ( self , data , cmd = None , via_queue = None ) : mq_channel = self . _connect_mq ( ) if cmd : data [ 'cmd' ] = cmd if via_queue : mq_channel . basic_publish ( exchange = '' , routing_key = via_queue , body = json . dumps ( data ) ) else : mq_channel . basic_publish ( exchange = self . prv_exchange ... | Send arbitrary cmd and data to client |
3,831 | def assign_yourself ( self ) : task_invitation = TaskInvitation . objects . get ( self . task_invitation_key ) wfi = task_invitation . instance if not wfi . current_actor . exist : wfi . current_actor = self . current . role wfi . save ( ) [ inv . delete ( ) for inv in TaskInvitation . objects . filter ( instance = wfi... | Assigning the workflow to itself . The selected job is checked to see if there is an assigned role . If it does not have a role assigned to it it takes the job to itself and displays a message that the process is successful . If there is a role assigned to it it does not do any operation and the message is displayed on... |
3,832 | def send_workflow ( self ) : task_invitation = TaskInvitation . objects . get ( self . task_invitation_key ) wfi = task_invitation . instance select_role = self . input [ 'form' ] [ 'select_role' ] if wfi . current_actor == self . current . role : task_invitation . role = RoleModel . objects . get ( select_role ) wfi .... | With the workflow instance and the task invitation is assigned a role . |
3,833 | def save_date ( self ) : task_invitation = TaskInvitation . objects . get ( self . task_invitation_key ) wfi = task_invitation . instance if wfi . current_actor . exist and wfi . current_actor == self . current . role : dt_start = datetime . strptime ( self . input [ 'form' ] [ 'start_date' ] , "%d.%m.%Y" ) dt_finish =... | Invitations with the same workflow status are deleted . Workflow instance and invitation roles change . |
3,834 | def suspend ( self ) : task_invitation = TaskInvitation . objects . get ( self . task_invitation_key ) wfi = task_invitation . instance if wfi . current_actor . exist and wfi . current_actor == self . current . role : for m in RoleModel . objects . filter ( abstract_role = self . current . role . abstract_role , unit =... | If there is a role assigned to the workflow and it is the same as the user it can drop the workflow . If it does not exist it can not do anything . |
3,835 | def on_home_row ( self , location = None ) : location = location or self . location return ( self . color == color . white and location . rank == 1 ) or ( self . color == color . black and location . rank == 6 ) | Finds out if the piece is on the home row . |
3,836 | def would_move_be_promotion ( self , location = None ) : location = location or self . location return ( location . rank == 1 and self . color == color . black ) or ( location . rank == 6 and self . color == color . white ) | Finds if move from current get_location would result in promotion |
3,837 | def square_in_front ( self , location = None ) : location = location or self . location return location . shift_up ( ) if self . color == color . white else location . shift_down ( ) | Finds square directly in front of Pawn |
3,838 | def forward_moves ( self , position ) : if position . is_square_empty ( self . square_in_front ( self . location ) ) : if self . would_move_be_promotion ( ) : for move in self . create_promotion_moves ( notation_const . PROMOTE ) : yield move else : yield self . create_move ( end_loc = self . square_in_front ( self . l... | Finds possible moves one step and two steps in front of Pawn . |
3,839 | def _one_diagonal_capture_square ( self , capture_square , position ) : if self . contains_opposite_color_piece ( capture_square , position ) : if self . would_move_be_promotion ( ) : for move in self . create_promotion_moves ( status = notation_const . CAPTURE_AND_PROMOTE , location = capture_square ) : yield move els... | Adds specified diagonal as a capture move if it is one |
3,840 | def capture_moves ( self , position ) : try : right_diagonal = self . square_in_front ( self . location . shift_right ( ) ) for move in self . _one_diagonal_capture_square ( right_diagonal , position ) : yield move except IndexError : pass try : left_diagonal = self . square_in_front ( self . location . shift_left ( ) ... | Finds out all possible capture moves |
3,841 | def on_en_passant_valid_location ( self ) : return ( self . color == color . white and self . location . rank == 4 ) or ( self . color == color . black and self . location . rank == 3 ) | Finds out if pawn is on enemy center rank . |
3,842 | def _is_en_passant_valid ( self , opponent_pawn_location , position ) : try : pawn = position . piece_at_square ( opponent_pawn_location ) return pawn is not None and isinstance ( pawn , Pawn ) and pawn . color != self . color and position . piece_at_square ( opponent_pawn_location ) . just_moved_two_steps except Index... | Finds if their opponent s pawn is next to this pawn |
3,843 | def add_one_en_passant_move ( self , direction , position ) : try : if self . _is_en_passant_valid ( direction ( self . location ) , position ) : yield self . create_move ( end_loc = self . square_in_front ( direction ( self . location ) ) , status = notation_const . EN_PASSANT ) except IndexError : pass | Yields en_passant moves in given direction if it is legal . |
3,844 | def en_passant_moves ( self , position ) : if self . on_en_passant_valid_location ( ) : for move in itertools . chain ( self . add_one_en_passant_move ( lambda x : x . shift_right ( ) , position ) , self . add_one_en_passant_move ( lambda x : x . shift_left ( ) , position ) ) : yield move | Finds possible en passant moves . |
3,845 | def respond ( text = None , ssml = None , attributes = None , reprompt_text = None , reprompt_ssml = None , end_session = True ) : obj = { 'version' : '1.0' , 'response' : { 'outputSpeech' : { 'type' : 'PlainText' , 'text' : '' } , 'shouldEndSession' : end_session } , 'sessionAttributes' : attributes or { } } if text :... | Build a dict containing a valid response to an Alexa request . |
3,846 | def validate_request_timestamp ( req_body , max_diff = 150 ) : time_str = req_body . get ( 'request' , { } ) . get ( 'timestamp' ) if not time_str : log . error ( 'timestamp not present %s' , req_body ) return False req_ts = datetime . strptime ( time_str , "%Y-%m-%dT%H:%M:%SZ" ) diff = ( datetime . utcnow ( ) - req_ts... | Ensure the request s timestamp doesn t fall outside of the app s specified tolerance . |
3,847 | def validate_request_certificate ( headers , data ) : if 'SignatureCertChainUrl' not in headers or 'Signature' not in headers : log . error ( 'invalid request headers' ) return False cert_url = headers [ 'SignatureCertChainUrl' ] sig = base64 . b64decode ( headers [ 'Signature' ] ) cert = _get_certificate ( cert_url ) ... | Ensure that the certificate and signature specified in the request headers are truely from Amazon and correctly verify . |
3,848 | def _get_certificate ( cert_url ) : global _cache if cert_url in _cache : cert = _cache [ cert_url ] if cert . has_expired ( ) : _cache = { } else : return cert url = urlparse ( cert_url ) host = url . netloc . lower ( ) path = posixpath . normpath ( url . path ) if url . scheme != 'https' or host not in [ 's3.amazonaw... | Download and validate a specified Amazon PEM file . |
3,849 | def is_processed ( self , db_versions ) : return self . number in ( v . number for v in db_versions if v . date_done ) | Check if version is already applied in the database . |
3,850 | def is_noop ( self ) : has_operations = [ mode . pre_operations or mode . post_operations for mode in self . _version_modes . values ( ) ] has_upgrade_addons = [ mode . upgrade_addons or mode . remove_addons for mode in self . _version_modes . values ( ) ] noop = not any ( ( has_upgrade_addons , has_operations ) ) retu... | Check if version is a no operation version . |
3,851 | def _get_version_mode ( self , mode = None ) : version_mode = self . _version_modes . get ( mode ) if not version_mode : version_mode = self . _version_modes [ mode ] = VersionMode ( name = mode ) return version_mode | Return a VersionMode for a mode name . |
3,852 | def add_operation ( self , operation_type , operation , mode = None ) : version_mode = self . _get_version_mode ( mode = mode ) if operation_type == 'pre' : version_mode . add_pre ( operation ) elif operation_type == 'post' : version_mode . add_post ( operation ) else : raise ConfigurationError ( u"Type of operation mu... | Add an operation to the version |
3,853 | def add_backup_operation ( self , backup , mode = None ) : try : if self . options . backup : self . options . backup . ignore_if_operation ( ) . execute ( ) except OperationError : self . backup = backup | Add a backup operation to the version . |
3,854 | def pre_operations ( self , mode = None ) : version_mode = self . _get_version_mode ( mode = mode ) return version_mode . pre_operations | Return pre - operations only for the mode asked |
3,855 | def post_operations ( self , mode = None ) : version_mode = self . _get_version_mode ( mode = mode ) return version_mode . post_operations | Return post - operations only for the mode asked |
3,856 | def upgrade_addons_operation ( self , addons_state , mode = None ) : installed = set ( a . name for a in addons_state if a . state in ( 'installed' , 'to upgrade' ) ) base_mode = self . _get_version_mode ( ) addons_list = base_mode . upgrade_addons . copy ( ) if mode : add_mode = self . _get_version_mode ( mode = mode ... | Return merged set of main addons and mode s addons |
3,857 | def copy ( self ) : return type ( self ) ( reagents = [ x . copy ( ) for x in self . __reagents ] , meta = self . __meta . copy ( ) , products = [ x . copy ( ) for x in self . __products ] , reactants = [ x . copy ( ) for x in self . __reactants ] ) | get copy of object |
3,858 | def implicify_hydrogens ( self ) : total = 0 for ml in ( self . __reagents , self . __reactants , self . __products ) : for m in ml : if hasattr ( m , 'implicify_hydrogens' ) : total += m . implicify_hydrogens ( ) if total : self . flush_cache ( ) return total | remove explicit hydrogens if possible |
3,859 | def compose ( self ) : rr = self . __reagents + self . __reactants if rr : if not all ( isinstance ( x , ( MoleculeContainer , CGRContainer ) ) for x in rr ) : raise TypeError ( 'Queries not composable' ) r = reduce ( or_ , rr ) else : r = MoleculeContainer ( ) if self . __products : if not all ( isinstance ( x , ( Mol... | get CGR of reaction |
3,860 | def fix_positions ( self ) : shift_x = 0 for m in self . __reactants : max_x = self . __fix_positions ( m , shift_x , 0 ) shift_x = max_x + 1 arrow_min = shift_x if self . __reagents : for m in self . __reagents : max_x = self . __fix_positions ( m , shift_x , 1.5 ) shift_x = max_x + 1 else : shift_x += 3 arrow_max = s... | fix coordinates of molecules in reaction |
3,861 | def get_permissions ( self ) : user_role = self . last_login_role ( ) if self . last_login_role_key else self . role_set [ 0 ] . role return user_role . get_permissions ( ) | Permissions of the user . |
3,862 | def add_permission_by_name ( self , code , save = False ) : if not save : return [ "%s | %s" % ( p . name , p . code ) for p in Permission . objects . filter ( code__contains = code ) ] for p in Permission . objects . filter ( code__contains = code ) : if p not in self . Permissions : self . Permissions ( permission = ... | Adds a permission with given name . |
3,863 | def send_notification ( self , title , message , typ = 1 , url = None , sender = None ) : self . user . send_notification ( title = title , message = message , typ = typ , url = url , sender = sender ) | sends a message to user of this role s private mq exchange |
3,864 | def would_move_be_promotion ( self ) : return ( self . _end_loc . rank == 0 and not self . color ) or ( self . _end_loc . rank == 7 and self . color ) | Finds if move from current location would be a promotion |
3,865 | def connect ( self , receiver , sender = None , weak = True , dispatch_uid = None ) : if dispatch_uid : lookup_key = ( dispatch_uid , _make_id ( sender ) ) else : lookup_key = ( _make_id ( receiver ) , _make_id ( sender ) ) if weak : ref = weakref . ref receiver_object = receiver if hasattr ( receiver , '__self__' ) an... | Connect receiver to sender for signal . |
3,866 | def disconnect ( self , receiver = None , sender = None , dispatch_uid = None ) : if dispatch_uid : lookup_key = ( dispatch_uid , _make_id ( sender ) ) else : lookup_key = ( _make_id ( receiver ) , _make_id ( sender ) ) disconnected = False with self . lock : self . _clear_dead_receivers ( ) for index in range ( len ( ... | Disconnect receiver from sender for signal . |
3,867 | def migrate ( config ) : webapp = WebApp ( config . web_host , config . web_port , custom_maintenance_file = config . web_custom_html ) webserver = WebServer ( webapp ) webserver . daemon = True webserver . start ( ) migration_parser = YamlParser . parse_from_file ( config . migration_file ) migration = migration_parse... | Perform a migration according to config . |
3,868 | def get_permissions ( cls ) : perms = [ ] for kls_name , kls in cls . registry . items ( ) : for method_name in cls . __dict__ . keys ( ) : if method_name . endswith ( '_view' ) : perms . append ( "%s.%s" % ( kls_name , method_name ) ) return perms | Generates permissions for all CrudView based class methods . |
3,869 | def _get_object_menu_models ( ) : from pyoko . conf import settings enabled_models = [ ] for entry in settings . OBJECT_MENU . values ( ) : for mdl in entry : if 'wf' not in mdl : enabled_models . append ( mdl [ 'name' ] ) return enabled_models | we need to create basic permissions for only CRUD enabled models |
3,870 | def add ( cls , code_name , name = '' , description = '' ) : if code_name not in cls . registry : cls . registry [ code_name ] = ( code_name , name or code_name , description ) return code_name | create a custom permission |
3,871 | def get_mapping ( self , other ) : m = next ( self . _matcher ( other ) . isomorphisms_iter ( ) , None ) if m : return { v : k for k , v in m . items ( ) } | get self to other mapping |
3,872 | def get_substructure_mapping ( self , other , limit = 1 ) : i = self . _matcher ( other ) . subgraph_isomorphisms_iter ( ) if limit == 1 : m = next ( i , None ) if m : return { v : k for k , v in m . items ( ) } return elif limit == 0 : return ( { v : k for k , v in m . items ( ) } for m in i ) return [ { v : k for k ,... | get self to other substructure mapping |
3,873 | def shift ( self , direction ) : try : if direction == Direction . UP : return self . shift_up ( ) elif direction == Direction . DOWN : return self . shift_down ( ) elif direction == Direction . RIGHT : return self . shift_right ( ) elif direction == Direction . LEFT : return self . shift_left ( ) else : raise IndexErr... | Shifts in direction provided by Direction enum . |
3,874 | def shift_up ( self , times = 1 ) : try : return Location ( self . _rank + times , self . _file ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted up by 1 |
3,875 | def shift_down ( self , times = 1 ) : try : return Location ( self . _rank - times , self . _file ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted down by 1 |
3,876 | def shift_right ( self , times = 1 ) : try : return Location ( self . _rank , self . _file + times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted right by 1 |
3,877 | def shift_left ( self , times = 1 ) : try : return Location ( self . _rank , self . _file - times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted left by 1 |
3,878 | def shift_up_right ( self , times = 1 ) : try : return Location ( self . _rank + times , self . _file + times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted up right by 1 |
3,879 | def shift_up_left ( self , times = 1 ) : try : return Location ( self . _rank + times , self . _file - times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted up left by 1 |
3,880 | def shift_down_right ( self , times = 1 ) : try : return Location ( self . _rank - times , self . _file + times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted down right by 1 |
3,881 | def shift_down_left ( self , times = 1 ) : try : return Location ( self . _rank - times , self . _file - times ) except IndexError as e : raise IndexError ( e ) | Finds Location shifted down left by 1 |
3,882 | def standardize ( self ) : self . reset_query_marks ( ) seen = set ( ) total = 0 for n , atom in self . atoms ( ) : if n in seen : continue for k , center in central . items ( ) : if center != atom : continue shell = tuple ( ( bond , self . _node [ m ] ) for m , bond in self . _adj [ n ] . items ( ) ) for shell_query ,... | standardize functional groups |
3,883 | def get_staged_files ( ) : proc = subprocess . Popen ( ( 'git' , 'status' , '--porcelain' ) , stdout = subprocess . PIPE , stderr = subprocess . PIPE ) out , _ = proc . communicate ( ) staged_files = modified_re . findall ( out ) return staged_files | Get all files staged for the current commit . |
3,884 | def runserver ( host = None , port = None ) : host = host or os . getenv ( 'HTTP_HOST' , '0.0.0.0' ) port = port or os . getenv ( 'HTTP_PORT' , '9001' ) zioloop = ioloop . IOLoop . instance ( ) pc = QueueManager ( zioloop ) app . pc = pc pc . connect ( ) app . listen ( port , host ) zioloop . start ( ) | Run Tornado server |
3,885 | def open ( self ) : sess_id = self . _get_sess_id ( ) if sess_id : self . application . pc . websockets [ self . _get_sess_id ( ) ] = self self . write_message ( json . dumps ( { "cmd" : "status" , "status" : "open" } ) ) else : self . write_message ( json . dumps ( { "cmd" : "error" , "error" : "Please login" , "code"... | Called on new websocket connection . |
3,886 | def on_message ( self , message ) : log . debug ( "WS MSG for %s: %s" % ( self . _get_sess_id ( ) , message ) ) self . application . pc . redirect_incoming_message ( self . _get_sess_id ( ) , message , self . request ) | called on new websocket message |
3,887 | def _remove_redundancy ( self , log ) : for key in log : if key in log and key in log [ 'data' ] : log [ key ] = log [ 'data' ] . pop ( key ) return log | Removes duplicate data from data inside log dict and brings it out . |
3,888 | def _scan_fpatterns ( self , state ) : for f in self . fpaths : fpattern , formatter = ( a . split ( '=' ) [ 1 ] for a in f . split ( ':' , 1 ) ) self . log . debug ( 'scan_fpatterns' , fpattern = fpattern , formatter = formatter ) fpaths = glob . glob ( fpattern ) fpaths = list ( set ( fpaths ) - set ( state . files_t... | For a list of given fpatterns this starts a thread collecting log lines from file |
3,889 | def get_links ( self , ** kw ) : links = [ a for a in dir ( self ) if isinstance ( getattr ( self , a ) , Model ) and not a . startswith ( '_model' ) ] return [ { 'field' : l , 'mdl' : getattr ( self , l ) . __class__ , } for l in links ] | Prepare links of form by mimicing pyoko s get_links method s result |
3,890 | def set_data ( self , data ) : for name in self . _fields : setattr ( self , name , data . get ( name ) ) return self | Fills form with data |
3,891 | def get_input ( source , files , threads = 4 , readtype = "1D" , combine = "simple" , names = None , barcoded = False ) : proc_functions = { 'fastq' : ex . process_fastq_plain , 'fasta' : ex . process_fasta , 'bam' : ex . process_bam , 'summary' : ex . process_summary , 'fastq_rich' : ex . process_fastq_rich , 'fastq_m... | Get input and process accordingly . |
3,892 | def combine_dfs ( dfs , names , method ) : if method == "track" : res = list ( ) for df , identifier in zip ( dfs , names ) : df [ "dataset" ] = identifier res . append ( df ) return pd . concat ( res , ignore_index = True ) elif method == "simple" : return pd . concat ( dfs , ignore_index = True ) | Combine dataframes . |
3,893 | def calculate_start_time ( df ) : if "time" in df : df [ "time_arr" ] = pd . Series ( df [ "time" ] , dtype = 'datetime64[s]' ) elif "timestamp" in df : df [ "time_arr" ] = pd . Series ( df [ "timestamp" ] , dtype = "datetime64[ns]" ) else : return df if "dataset" in df : for dset in df [ "dataset" ] . unique ( ) : tim... | Calculate the star_time per read . |
3,894 | def parser_from_buffer ( cls , fp ) : yaml = YAML ( typ = "safe" ) return cls ( yaml . load ( fp ) ) | Construct YamlParser from a file pointer . |
3,895 | def check_dict_expected_keys ( self , expected_keys , current , dict_name ) : if not isinstance ( current , dict ) : raise ParseError ( u"'{}' key must be a dict" . format ( dict_name ) , YAML_EXAMPLE ) expected_keys = set ( expected_keys ) current_keys = { key for key in current } extra_keys = current_keys - expected_... | Check that we don t have unknown keys in a dictionary . |
3,896 | def set_message ( self , title , msg , typ , url = None ) : return self . user . send_notification ( title = title , message = msg , typ = typ , url = url ) | Sets user notification message . |
3,897 | def is_auth ( self ) : if self . user_id is None : self . user_id = self . session . get ( 'user_id' ) return bool ( self . user_id ) | A property that indicates if current user is logged in or not . |
3,898 | def msg_box ( self , msg , title = None , typ = 'info' ) : self . output [ 'msgbox' ] = { 'type' : typ , "title" : title or msg [ : 20 ] , "msg" : msg } | Create a message box |
3,899 | def _update_task ( self , task ) : self . task = task self . task . data . update ( self . task_data ) self . task_type = task . task_spec . __class__ . __name__ self . spec = task . task_spec self . task_name = task . get_name ( ) self . activity = getattr ( self . spec , 'service_class' , '' ) self . _set_lane_data (... | Assigns current task step to self . task then updates the task s data with self . task_data |
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