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A couple of final edits suggested in review

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This commit is contained in:
Julian Stirling 2025-12-02 09:54:27 +00:00
parent 9b58f4d59e
commit 5017fea9d1
2 changed files with 4 additions and 2 deletions
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4
src/openflexure_microscope_server/things/autofocus.py
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@ -585,7 +585,7 @@ class AutofocusThing(lt.Thing):
supplied by LabThings dependency injection
:param stack_parameters: A StackParams object containing the required
parameters to run a stack.
:param save_on_failure: Whether to save an image even if the capture failed
:param save_on_failure: Whether to save an image even if no focus was found.
:param check_turning_points: Whether to check the number of turning points in
the sharpnesses of the images in the stack is exactly 1. (May fail with
thick samples)
@ -876,11 +876,13 @@ def _get_peak_turning_point(sharpnesses: np.ndarray) -> float:
# Fit the peak
x = range(len(sharpnesses))
coeffs, cov = np.polyfit(x, sharpnesses, deg=2, cov=True)
# a in the equation a*x^2 + bx + c
a = float(coeffs[0])
fit_func = np.poly1d(coeffs)
# find the peaks's x-position
turning = float(fit_func.deriv().roots[0])
# sigma_a the standard error of a
sigma_a = float(np.sqrt(cov[0, 0]))
# Estimate the upper 95% confidence bound for the x^2 term
ci_high = a + 2 * sigma_a