def test_pump_io_cant_set_both_duration_and_ml():
with pytest.raises(AssertionError):
add_media(ml=1, duration=1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
add_alt_media(ml=1, duration=1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
remove_waste(ml=1, duration=1, unit=unit, experiment=exp)
def test_pump_io():
add_media(ml=0.1, unit=unit, experiment=exp)
add_alt_media(ml=0.1, unit=unit, experiment=exp)
remove_waste(ml=0.1, unit=unit, experiment=exp)
add_media(duration=0.1, unit=unit, experiment=exp)
add_alt_media(duration=0.1, unit=unit, experiment=exp)
remove_waste(duration=0.1, unit=unit, experiment=exp)
def execute_io_action(self, alt_media_ml=0, media_ml=0, waste_ml=0):
assert (
abs(alt_media_ml + media_ml - waste_ml) < 1e-5
), f"in order to keep same volume, IO should be equal. {alt_media_ml}, {media_ml}, {waste_ml}"
max_ = 0.3
if alt_media_ml > max_:
self.execute_io_action(
alt_media_ml=alt_media_ml / 2,
media_ml=media_ml,
waste_ml=media_ml + alt_media_ml / 2,
)
self.execute_io_action(alt_media_ml=alt_media_ml / 2,
media_ml=0,
waste_ml=alt_media_ml / 2)
elif media_ml > max_:
self.execute_io_action(alt_media_ml=0,
media_ml=media_ml / 2,
waste_ml=media_ml / 2)
self.execute_io_action(
alt_media_ml=alt_media_ml,
media_ml=media_ml / 2,
waste_ml=alt_media_ml + media_ml / 2,
)
else:
if alt_media_ml > 0:
add_alt_media(
ml=alt_media_ml,
source_of_event=self.job_name,
unit=self.unit,
experiment=self.experiment,
)
brief_pause(
) # allow time for the addition to mix, and reduce the step response that can cause ringing in the output V.
if media_ml > 0:
add_media(
ml=media_ml,
source_of_event=self.job_name,
unit=self.unit,
experiment=self.experiment,
)
brief_pause()
if waste_ml > 0:
remove_waste(
ml=waste_ml,
source_of_event=self.job_name,
unit=self.unit,
experiment=self.experiment,
)
# run remove_waste for an additional few seconds to keep volume constant (determined by the length of the waste tube)
remove_waste(
duration=2,
source_of_event=self.job_name,
unit=self.unit,
experiment=self.experiment,
)
brief_pause()
def test_pump_io() -> None:
ml = 0.1
assert ml == add_media(ml=ml, unit=unit, experiment=exp)
assert ml == add_alt_media(ml=ml, unit=unit, experiment=exp)
assert ml == remove_waste(ml=ml, unit=unit, experiment=exp)
ml = 1.0
assert ml == add_media(duration=ml, unit=unit, experiment=exp)
assert ml == add_alt_media(duration=ml, unit=unit, experiment=exp)
assert ml == remove_waste(duration=ml, unit=unit, experiment=exp)
def test_pump_io_doesnt_allow_negative():
with pytest.raises(AssertionError):
add_media(ml=-1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
add_alt_media(ml=-1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
remove_waste(ml=-1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
add_media(duration=-1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
add_alt_media(duration=-1, unit=unit, experiment=exp)
with pytest.raises(AssertionError):
remove_waste(duration=-1, unit=unit, experiment=exp)
def execute(self):
vol = add_media(
ml=self.volume,
source_of_event=f"{self.job_name}:{self.automation_name}",
unit=self.unit,
experiment=self.experiment,
)
if vol != self.volume:
self.logger.warning("under-dosed!")
return events.AddMediaEvent(f"Added {vol} mL")