def sanitize(self, nmix=1, deepvol=20, force=False):
'Deep wash including RNase-Away treatment'
fixedTips = (~self.DITIMASK) & 15
worklist.flushQueue()
if not force and fixedTips == self.cleanTips:
# print no sanitize needed
worklist.comment("Sanitize not needed cleanTips=%d" %
self.cleanTips)
return
worklist.comment("Sanitize (cleanTips=%d)" % self.cleanTips)
worklist.wash(15, 1, 2)
fixedWells = []
if not self.overrideSanitize:
for i in range(4):
if (fixedTips & (1 << i)) != 0:
fixedWells.append(i)
decklayout.BLEACH.addhistory("SANITIZE", 0, 1 << i)
worklist.mix(fixedTips, fixedWells, decklayout.BLEACH.mixLC, 200,
decklayout.BLEACH.plate, nmix, False)
worklist.wash(fixedTips, 1, deepvol, True)
self.cleanTips |= fixedTips
# print "* Sanitize"
worklist.comment(clock.statusString())
def mix(self, tipMask, preaspirateAir=False, nmix=4):
if self.isMixed() and self.wellMixed:
logging.notice(
"mix() called for sample %s, which is already mixed" %
self.name)
return False
logging.mixwarning("Pipette mixing of %s may introduce bubbles" %
self.name)
self.volcheck(tipMask, [self.well], 0)
blowvol = 5
mstr = ""
extraspace = blowvol + 0.1
if preaspirateAir:
extraspace += 5
mixvol = self.volume # -self.plate.unusableVolume; # Can mix entire volume, if air is aspirated, it will just be dispensed first without making a bubble
if self.volume > MAXVOLUME - extraspace:
mixvol = MAXVOLUME - extraspace
logging.mixwarning(
"Mix of %s limited to %.0f ul instead of full volume of %.0ful"
% (self.name, mixvol, self.volume))
well = [self.well if self.well != None else 2**(tipMask - 1) - 1]
mixprefillvol = 5
if mixvol < self.plate.unusableVolume - mixprefillvol:
logging.notice("Not enough volume in sample %s (%.1f) to mix" %
(self.name, self.volume))
self.history += "(UNMIXED)"
return False
else:
if preaspirateAir:
# Aspirate some air to avoid mixing with excess volume aspirated into pipette from source in previous transfer
self.aspirateAir(tipMask, 5)
if False: # this results in losing mixprefillvol of sample which was not mixed; remainder has different concentration than planned
worklist.aspirateNC(tipMask, well, self.inliquidLC,
mixprefillvol, self.plate)
self.removeVolume(mixprefillvol)
self.addhistory("(PRE)", -mixprefillvol, tipMask)
worklist.mix(tipMask, well, self.mixLC, mixvol, self.plate,
nmix)
mstr = "(MB)"
elif False: # self.volume>=MINLIQUIDDETECTVOLUME: # Another short-lived strategy
worklist.mix(tipMask, well, self.inliquidLC, mixvol,
self.plate, nmix)
self.history += "(MLD)"
else:
height = self.plate.getliquidheight(self.volume)
if height is None:
worklist.mix(tipMask, well, self.mixLC, mixvol, self.plate,
nmix)
mstr = "(MB)"
else:
mixheight = math.floor(
height - 1) # At least 1mm below liquid height
if mixheight < 2:
mixheight = 2
# print 'Vol=%.1f ul, height=%.1f mm, mix=%d, blow=%d'%(self.volume,height,mixheight,blowheight)
mixLC = liquidclass.LCMix[min(12, mixheight)]
if blowvol > 0:
blowoutLC = liquidclass.LCBlowoutLD
worklist.aspirateNC(tipMask, well, self.airLC,
(blowvol + 0.1), self.plate)
if self.volume < 30:
worklist.mix(tipMask, well, self.mixLC, mixvol,
self.plate, nmix)
mstr = "(MB)"
else:
for _ in range(nmix):
worklist.aspirateNC(tipMask, well, mixLC, mixvol,
self.plate)
worklist.dispense(tipMask, well, mixLC, mixvol,
self.plate)
mstr = "(M@%d)" % (mixheight)
if blowvol > 0:
worklist.dispense(tipMask, well, blowoutLC, blowvol,
self.plate)
worklist.dispense(tipMask, well, liquidclass.LCDip,
0.1, self.plate)
self.removeVolume(MIXLOSS)
self.addhistory(mstr, -MIXLOSS, tipMask)
self.lastMixed = clock.elapsed()
self.wellMixed = True
return True
import worklist
import plate
#aspirate(1,"LC",[1,3,4],1,2,3,"wells")
plate1 = plate.Plate("Samples", 4, 3, 12, 8)
worklist.aspirate(7, ['B3', 'D3', 'E3'], "Water", [10, 20, 30], plate1)
worklist.aspirate(7, ['B4', 'D4', 'F4'], "Water", [10, 20, 30], plate1)
worklist.aspirate(1, ['B1'], "Water", [10], plate1)
worklist.dispense(2, ['B1'], "Water", [10], plate1)
worklist.mix(2, ['B1'], "Water", [10], plate1, 7)
worklist.vector("ROMAVector", plate1, worklist.SAFETOEND, True, worklist.OPEN,
worklist.CLOSE)
worklist.execute("python test", True, "result")
worklist.userprompt("Script done")
worklist.dump()
