def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The rack scanning layout.
self.__rs_layout = None
#: Intermediate error storage.
self.__invalid_labels = None
self.__position_out_of_range = None
self.__duplicate_positions = None
self.__duplicate_tubes = None
def reset(self):
"""
Resets all values except for the initialisation values.
"""
BaseParserHandler.reset(self)
self.__rs_layout = None
self.__invalid_labels = []
self.__position_out_of_range = []
self.__duplicate_positions = set()
self.__duplicate_tubes = set()
def reset(self):
BaseParserHandler.reset(self)
self.__number_molecule_designs = None
self.__molecule_type = None
self.__md_map = dict()
self.__pool_map = dict()
self.__pools = set()
self.__pools_to_find = []
self.__invalid_number_designs = []
self.__invalid_molecule_type = []
def reset(self):
BaseParserHandler.reset(self)
self.__tube_transfers = []
self.__racks = dict()
self.__rack_agg = get_root_aggregate(ITubeRack)
self.__timestamp = None
self.__unknown_racks = []
self.__missing_tube = []
self.__mismatching_tube = []
self.__invalid_pos_label = []
def reset(self):
BaseParserHandler.reset(self)
self.__tube_transfers = []
self.__racks = dict()
self.__rack_agg = get_root_aggregate(ITubeRack)
self.__timestamp = None
self.__unknown_racks = []
self.__missing_tube = []
self.__mismatching_tube = []
self.__invalid_pos_label = []
def reset(self):
BaseParserHandler.reset(self)
self.__number_molecule_designs = None
self.__molecule_type = None
self.__md_map = dict()
self.__pool_map = dict()
self.__pools = set()
self.__pools_to_find = []
self.__invalid_number_designs = []
self.__invalid_molecule_type = []
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The tube transfer entities created.
self.__tube_transfers = None
#: Maps racks onto rack barcodes.
self.__racks = None
#: The aggregate used to find the rack for a rack barcode.
self.__rack_agg = None
#: The earliest of all timestamps in the robot log file.
self.__timestamp = None
#: Intermediate error storage.
self.__unknown_racks = None
self.__missing_tube = None
self.__mismatching_tube = None
self.__invalid_pos_label = None
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The tube transfer entities created.
self.__tube_transfers = None
#: Maps racks onto rack barcodes.
self.__racks = None
#: The aggregate used to find the rack for a rack barcode.
self.__rack_agg = None
#: The earliest of all timestamps in the robot log file.
self.__timestamp = None
#: Intermediate error storage.
self.__unknown_racks = None
self.__missing_tube = None
self.__mismatching_tube = None
self.__invalid_pos_label = None
def __init__(self, stream, number_molecule_designs, molecule_type, parent=None):
"""
Constructor.
:param int number_molecule_designs: The number of molecule designs
per cell (list).
:param molecule_type: The expected molecule type for all molecule
designs in the library.
:type molecule_type: :class:`thelma.entities.moleculetype.MoleculeType`
"""
BaseParserHandler.__init__(self, stream=stream, parent=parent)
self.number_molecule_designs = number_molecule_designs
self.molecule_type = molecule_type
#: Map molecule design ID -> molecule design.
self.__md_map = None
#: Contains the stock sample molecule design sets for the final
#: library pool set.
self.__library_sets = None
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The number of molecule designs per cell (list).
self.__number_molecule_designs = None
#: The expected molecule type for all molecule designs in the library.
self.__molecule_type = None
#: Maps molecule designs onto molecule design IDs.
self.__md_map = None
#: Maps pools onto pool IDs.
self.__pool_map = None
#: Stores set of single molecule design for which we still have to
#: find the pool ID.
self.__pools_to_find = None
#: Contains the molecule design pool sets for the final
#: ISO request pool set.
self.__pools = None
# Intermediate error storage.
self.__invalid_number_designs = None
self.__invalid_molecule_type = None
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The number of molecule designs per cell (list).
self.__number_molecule_designs = None
#: The expected molecule type for all molecule designs in the library.
self.__molecule_type = None
#: Maps molecule designs onto molecule design IDs.
self.__md_map = None
#: Maps pools onto pool IDs.
self.__pool_map = None
#: Stores set of single molecule design for which we still have to
#: find the pool ID.
self.__pools_to_find = None
#: Contains the molecule design pool sets for the final
#: ISO request pool set.
self.__pools = None
# Intermediate error storage.
self.__invalid_number_designs = None
self.__invalid_molecule_type = None
def __init__(self,
stream,
number_molecule_designs,
molecule_type,
parent=None):
"""
Constructor.
:param int number_molecule_designs: The number of molecule designs
per cell (list).
:param molecule_type: The expected molecule type for all molecule
designs in the library.
:type molecule_type: :class:`thelma.entities.moleculetype.MoleculeType`
"""
BaseParserHandler.__init__(self, stream=stream, parent=parent)
self.number_molecule_designs = number_molecule_designs
self.molecule_type = molecule_type
#: Map molecule design ID -> molecule design.
self.__md_map = None
#: Contains the stock sample molecule design sets for the final
#: library pool set.
self.__library_sets = None
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The molecule type of the molecule design pools.
self.__molecule_type = None
#: The stock concentration for the pools (must all be the same).
self.__stock_concentration = None
def reset(self):
BaseParserHandler.reset(self)
self.__md_map = dict()
self.__library_sets = set()
def reset(self):
BaseParserHandler.reset(self)
self.__md_map = dict()
self.__library_sets = set()
def __init__(self, stream, parent=None):
BaseParserHandler.__init__(self, stream=stream, parent=parent)
#: The molecule type of the molecule design pools.
self.__molecule_type = None
#: The stock concentration for the pools (must all be the same).
self.__stock_concentration = None
