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include peak detection in scheludko

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This commit is contained in:
François Boulogne 2025-05-21 14:43:20 +02:00
parent 56aac01151
commit ccd1f2c1f0
7 changed files with 100 additions and 82 deletions
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19
optifik/auto.py
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@ -3,10 +3,10 @@ import os.path
from .analysis import *
from .io import load_spectrum
def auto(DATA_FOLDER, FILE_NAME, plot=None):
def auto(spectrum_file, plot=None):
spectre_file = os.path.join(DATA_FOLDER, FILE_NAME)
spectre_file = spectrum_file
##### Affichage du spectre brut et récupération des Intesités brutes#####
@ -32,17 +32,20 @@ def auto(DATA_FOLDER, FILE_NAME, plot=None):
prominence = 0.03
##### Find Peak #####
total_extrema, peaks_min, peaks_max = finds_peak(lambdas, smoothed_intensities,
peaks_min, peaks_max = finds_peak(lambdas, smoothed_intensities,
min_peak_prominence=prominence,
plot=plot)
plot=False)
##### Epaisseur selon la methode #####
#thickness_FFT = thickness_from_fft(lambdas,smoothed_intensities,refractive_index=1.33)
total_extrema = len(peaks_max) + len(peaks_min)
if total_extrema > 15 and total_extrema > 4:
print('Apply method FFT')
thickness_FFT = thickness_from_fft(lambdas,smoothed_intensities,
thickness_FFT = thickness_from_fft(lambdas, smoothed_intensities,
refractive_index=indice,
plot=plot)
thickness = thickness_FFT.thickness
@ -51,7 +54,7 @@ def auto(DATA_FOLDER, FILE_NAME, plot=None):
if total_extrema <= 15 and total_extrema > 4:
print('Apply method minmax')
thickness_minmax = thickness_from_minmax(lambdas,smoothed_intensities,
thickness_minmax = thickness_from_minmax(lambdas, smoothed_intensities,
refractive_index=indice,
min_peak_prominence=prominence,
plot=plot)
@ -61,8 +64,8 @@ def auto(DATA_FOLDER, FILE_NAME, plot=None):
if total_extrema <= 4 and total_extrema >= 2: #& 2peak minimum:
print('Apply method Scheludko')
thickness = thickness_from_scheludko(lambdas, smoothed_intensities,
peaks_min, peaks_max,
refractive_index=indice,
min_peak_prominence=prominence,
plot=plot)
print(f'thickness: {thickness:.2f} nm')
@ -70,8 +73,8 @@ def auto(DATA_FOLDER, FILE_NAME, plot=None):
print('Apply method ordre0')
thickness = thickness_for_order0(lambdas, smoothed_intensities,
peaks_min, peaks_max,
refractive_index=indice,
min_peak_prominence=prominence,
plot=plot)
print(f'thickness: {thickness:.2f} nm')