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Added copy_sharpest_image to autofocus

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jaknapper 2025-05-12 12:32:51 +01:00 • committed by Julian Stirling
parent d39bcbaf5c
commit 52b58241cc
1 changed files with 25 additions and 7 deletions
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32
src/openflexure_microscope_server/things/autofocus.py
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@ -319,9 +319,10 @@ class AutofocusThing(Thing):
)
captured = time.time()
# There's an unnecessary move up at the end of the stack
stage.move_relative(z=stack_dz)
if capture_count + 1 < images_to_capture:
stage.move_relative(z=stack_dz)
moved = time.time()
image = image.resize(target_resolution, Image.LANCZOS)
image = image.resize(target_resolution, Image.BOX)
downsampled = time.time()
capture._save_capture(
jpeg_path=jpeg_path,
@ -330,12 +331,12 @@ class AutofocusThing(Thing):
logger=logger,
)
saved = time.time()
logger.info(f"Capturing took {round(captured - start, 2)} s")
logger.info(f"Resizing took {round(downsampled - moved, 2)} s")
logger.info(f"Saving took {round(saved - downsampled, 2)} s")
logger.info(f"Effective settling time was {round(saved - moved, 2)} s")
logger.debug(f"Capturing took {round(captured - start, 2)} s")
logger.debug(f"Resizing took {round(downsampled - moved, 2)} s")
logger.debug(f"Saving took {round(saved - downsampled, 2)} s")
logger.debug(f"Effective settling time was {round(saved - moved, 2)} s")
self.copy_central_image_from_stack(images_dir, stack_dir)
self.copy_sharpest_image_from_stack(images_dir, stack_dir, logger)
def copy_central_image_from_stack(
self,
@ -351,3 +352,20 @@ class AutofocusThing(Thing):
xy_location = os.path.basename(stack_dir)
shutil.copy(central_image, os.path.join(images_dir, f"{xy_location}.jpeg"))
def copy_sharpest_image_from_stack(
self,
images_dir: str,
stack_dir: str,
logger: InvocationLogger,
):
"""Gets a list of images in a folder (stack_dir), sorts them by filesize, and copies the sharpest
image to images dir."""
image_list = glob.glob(os.path.join(stack_dir, "*"))
image_list = sorted(image_list, key=os.path.getsize)
central_index = (len(image_list) - 1) // 2
central_image = image_list[central_index]
xy_location = os.path.basename(stack_dir)
logger.info(central_image)
shutil.copy(central_image, os.path.join(images_dir, f"{xy_location}.jpeg"))