Restore behaviour that uses nearest focused pos if adjacent fails
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1 changed files with 11 additions and 1 deletions
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@ -372,7 +372,10 @@ class SmartSpiral(ScanPlanner):
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autofocus and restart. Starting too low just requires extra movements in +z.
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Nearby is defined as within 1.1 times the larger of the x and y scan offsets.
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Returns None if there if no focused locations are present
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If no focused sites are within this range, use the height of the nearest
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focused site.
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Returns None if no focused locations are present
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"""
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if not self._focused_locations:
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return None
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@ -393,6 +396,13 @@ class SmartSpiral(ScanPlanner):
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# Note np.where always returns a tuple of arrays, hence the trailing [0]
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indices = np.where(dists <= distance_cutoff)[0]
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# Handle the case that no focused positions are within this range, and
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# instead use the nearest focused position. This will always return a
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# height, due to the check that self._focused_locations exists.
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if len(indices) == 0:
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distance_cutoff = min(dists)
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indices = np.where(dists <= distance_cutoff)[0]
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# Turning into an array allows slicing based on a list
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focused_locations_array = np.array(self._focused_locations)
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