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Autofocus tweaks for smart scan

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We've removed the initial double-autofocus (we just do a
single looping autofocus at the start), and now only do 3 retries rather than 5 if the focus is rejected.
This commit is contained in:
Richard Bowman 2024-01-11 14:15:54 +00:00
parent 20efaa2799
commit 924cce649a
1 changed files with 2 additions and 8 deletions
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10
src/openflexure_microscope_server/things/smart_scan.py
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@ -439,9 +439,6 @@ class SmartScanThing(Thing):
os.mkdir(raw_images_folder) os.mkdir(raw_images_folder)
logger.info(f"Saving images to {images_folder}") logger.info(f"Saving images to {images_folder}")
# TODO: I think this is unnecessary, we do a looping autofocus at the first point in the loop, unless
# it's flagged as background (which is a wierd case anyway)
recentre.looping_autofocus()
# move to each x-y position. in z, move to the height of the closest x-y position that successfully focused # move to each x-y position. in z, move to the height of the closest x-y position that successfully focused
while len(path) > 0: while len(path) > 0:
ensure_free_disk_space(scan_folder) ensure_free_disk_space(scan_folder)
@ -512,15 +509,12 @@ class SmartScanThing(Thing):
loc = list(stage.position.values()) loc = list(stage.position.values())
focused_path.append(loc) focused_path.append(loc)
break break
if attempts >= 5: if attempts >= 3:
logger.warning("Could not autofocus after 5 attempts.") logger.warning("Could not autofocus after 5 attempts.")
break break
# if the autofocus was rejected, we return to the height of the closest successful autofocus. not perfect, but better than wandering out of focus # if the autofocus was rejected, we return to the height of the closest successful autofocus. not perfect, but better than wandering out of focus
logger.info( logger.info(
"The focus seems to have moved farther than we expect. " "The focus has shifted further than we expect: retrying."
"We will now rest the Z position and try again. "
f"Options are {focused_path}, we chose "
f"{nearest_focused_site}"
) )
stage.move_absolute(z=int(focused_path[z_index][2])) stage.move_absolute(z=int(focused_path[z_index][2]))
attempts += 1 attempts += 1