def gogetprotein(hangouttime,flowon,initforce):
print("getting protein for " + str(hangouttime) + " sec")
trap = Trap("1", "XY")
trap.move_to(waypoint="measure point",speed=4)
stage.move_to("J1")
stage.move_to("Ch1")
setpressure(0.12)
if flowon:
fluidics.open(1,2,3,4,6)
pause(hangouttime)
fluidics.close(1,2,3,4,6)
stage.move_to("J1")
stage.move_to("buffer")
def stretchitout(stretchtime):
print("pre stretch time: "+ str(stretchtime) + " sec")
f1=trap2.current_force
print(" initial force: " + str(round(f1,2)))
trap = Trap("1", "XY")
trap.move_to(waypoint="more streatch",speed=4)
pause(stretchtime)
trap.move_to(waypoint="measure point",speed=4)
pause(2)
f2=trap2.current_force
print(" final force: " + str(round(f2,2)))
if f2<(0.5*f1) and f1 > 1:
print("it broke")
return 0
return 1
pause(stepsize)
print(" " + str(round(i * stepsize * 100 / time)) +
"% of time has elapsed (" + str(round(i * stepsize / 60, 1)) +
" min)")
# MAIN ======================================
hangtime = 5 #how long it stays stretched
imagetime = 400 #how long to image for
proteintime = 3 #waiting for protein to bind
excitation_lasers.green = 0
trap = Trap("1", "XY")
# stretching
print("stretching for " + str(hangtime) + " sec")
trap.move_to(waypoint="more streatch", speed=5)
timeprogression(hangtime, 5)
trap.move_to(waypoint="measure point", speed=5)
print("stretch done")
print("just hanging out for a bit for protein binding (" + str(proteintime) +
" sec)")
timeprogression(proteintime, 5)
#turn on laser
excitation_lasers.green = 30
#start imaging
confocal.start_scan("Rep kymo")
print("Scan started: " + str(imagetime) + "sec")
timeprogression(imagetime, 10)
_( _( (~ ( _=~ _C(~
( ( ( _C=(~~
(_ __ ~~~==(X
_(_ _@@_ _ ~(C_
C(~ (_ ~((~ (_ ~(C_
(~ _C(_ _( (C_
(C_C(C_( _=~ (C_
~( C( (C
_( ~(_
( _ (C
( ~C ~(_
( (_ (C
(_ ~C ~(
(_ (_ ~(
"""
print(bb)
#THIS IS THE START OF THE MAIN -----------------------------------------
finished = 0
while finished == 0:
finished = thelooploop()
#if want to move to ch4 to ready for experiment start
if echannel == 1:
movetoch4()
trap.move_to(waypoint="stretched", speed=3)
print('ready to image!')
bigbird()
print("hopefully we finished")
return 1
#THIS IS THE START OF THE MAIN -----------------------------------------
chk = 0
while chk == 0:
print("starting loop loop")
chk = themainloop()
if chk == 1:
chk = false_positive()
else:
target_traps = traps[:2]
target_traps[1].clear()
target_traps[0].clear()
#hopefully caught something, move to buffer channel and reset all
stage.move_to("buffer")
gohome()
fluidics.stop_flow()
reset_force()
print("in the buffer channel with all reset")
#if want to move to ch4 to ready for experiment start
if echannel == 1:
movetoch4()
trap.move_to(waypoint="Point 2", speed=3)
print('ready to image!')