#---------------------------------------------------------------------------------------
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)
elif method is 'draw_air_to_syringe':
biochem.draw_air_to_syringe()
elif method is 'draw_air_to_valve':
print "\n***\t*\t--> Please, enter valve name air to be drawn (V1, V2, V3, V5) [string]: ",
valve = str(sys.stdin.readline().strip(
)) # use stdin explicitly and remove trailing new-line character
biochem.draw_air_to_valve(valve)
biochem = Biochem('WL1', int(sys.argv[1]))
method = sys.argv[2]
log.info("---\t-\t--> Started %s method execution - biochem_utils.py" % \
(method))
# usage: biochem_utils.py fcnum cycle_ligation cyclename
# cyclename must be a valid cyclename that has a nonamer/hyb
# valve/port mapping in sequencing.cfg
# cyclename can be either 3 or 4 chars in length
if method == 'cycle_ligation':
biochem.flowcell = int(sys.argv[1])
biochem.cycle_name = sys.argv[3]
biochem.cycle = biochem.cycle_name[0:3]
biochem.cycle_ligation()
# usage: biochem_utils.py fcnum flush_flowcell
elif method == 'flush_flowcell':
reagent = "Wash 1"
if reagent == 'Wash 1':
port = 9
elif reagent == 'dH2O':
port = 7
biochem.flush_flowcell(9)
#biochem.rinse(int(sys.argv[1]))
# usage: biochem_utils.py fcnum draw_into_flowcell
elif method == 'draw_into_flowcell':
