t0 = time.time() # get current time
logger = Logger(config) # initialize logger object
biochem = Biochem(
'WL1', int(sys.argv[1]), logger
) # Initialize biochemistry object - cycle-name and flowcell-number need to be passed.
#---------------------------------------------------------------------------------------
# FLUIDICS SUB-SYSTEM FUNCTIONS
#---------------------------------------------------------------------------------------
logger.info('***\t*\t--> Started %s method execution - fluidics_utils.py' %
sys.arg[2])
if method is 'clean_V1_to_syringe':
biochem.clean_V1_to_syringe()
elif method is 'clean_V2_to_syringe':
biochem.clean_V2_to_syringe()
elif method is 'clean_flowcell_and_syringe':
biochem.clean_flowcell_and_syringe()
elif method is 'cycle_ligation':
biochem.cycle_ligation()
elif method is 'draw_air_to_mixer':
print "\n***\t*\t--> Please, enter air gap size [integer]: ",
gap_size = int(sys.stdin.readline().strip(
)) # use stdin explicitly and remove trailing new-line character
biochem.draw_air_to_mixer(gap_size)
config = ConfigParser.ConfigParser()
config.readfp(open('config.txt'))
t0 = time.time() # get current time
logger = Logger(config) # initialize logger object
biochem = Biochem('WL1', int(sys.argv[1]), logger) # Initialize biochemistry object - cycle-name and flowcell-number need to be passed.
#---------------------------------------------------------------------------------------
# FLUIDICS SUB-SYSTEM FUNCTIONS
#---------------------------------------------------------------------------------------
logger.info('***\t*\t--> Started %s method execution - fluidics_utils.py' % sys.arg[2])
if method is 'clean_V1_to_syringe':
biochem.clean_V1_to_syringe()
elif method is 'clean_V2_to_syringe':
biochem.clean_V2_to_syringe()
elif method is 'clean_flowcell_and_syringe':
biochem.clean_flowcell_and_syringe()
elif method is 'cycle_ligation':
biochem.cycle_ligation()
elif method is 'draw_air_to_mixer':
print "\n***\t*\t--> Please, enter air gap size [integer]: ",
gap_size = int(sys.stdin.readline().strip()) # use stdin explicitly and remove trailing new-line character
biochem.draw_air_to_mixer(gap_size)
