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Test the success of refocusing

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This commit is contained in:
Joe Knapper 2024-02-13 15:24:42 +00:00
parent f2d85cb891
commit f1c315783c
2 changed files with 50 additions and 17 deletions
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25
src/openflexure_microscope_server/things/autofocus.py
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@ -26,6 +26,7 @@ from pydantic import BaseModel
Stage = direct_thing_client_dependency(SangaboardThing, "/stage/")
Camera = raw_thing_dependency(StreamingPiCamera2)
WrappedCamera = direct_thing_client_dependency(StreamingPiCamera2, "/camera/")
### Autofocus utilities
@ -206,12 +207,14 @@ class AutofocusThing(Thing):
"""
repeat = True
attempts = 0
backlash = 200
with m.run():
while repeat and attempts < 10:
if start == 'centre':
stage.move_relative(x = 0, y = 0, z = -dz / 2)
stage.move_relative(x = 0, y = 0, z = -(backlash + dz / 2))
stage.move_relative(x = 0, y = 0, z = backlash)
i, z = m.focus_rel(dz, block_cancellation=True)
_, heights, sizes = m.move_data(i)
@ -226,8 +229,24 @@ class AutofocusThing(Thing):
):
attempts += 1
start = 'centre'
stage.move_absolute(z = peak_height-backlash)
stage.move_absolute(z = peak_height)
else:
repeat = False
stage.move_relative(x = 0, y = 0, z = -dz)
stage.move_absolute(z = peak_height)
stage.move_relative(x = 0, y = 0, z = -(dz+backlash))
stage.move_absolute(z = peak_height)
return heights.tolist(), sizes.tolist()
@thing_action
def verify_focus_sharpness(self, sweep_sizes: list, camera: WrappedCamera, leniency: int = 1):
'''Take the sharpness curve of the autofocus, and the size of the current frame
to see if the autofocus completed successfully. Returns True if current sharpness
is within "leniency" number of frames from the peak of the autofocus'''
current_sharpness = camera.grab_jpeg_size(stream_name='lores')
peak = np.argmax(sweep_sizes)
accepted_range = [peak - leniency, peak + leniency]
sharpness_range = [sweep_sizes[i] for i in accepted_range]
return current_sharpness >= min(sharpness_range)