fix NameError in process.py - #119
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When trying to run the example notebooks I ran into this error, with the source_size function seems the kernel_sigma should just be sigma:
NameError Traceback (most recent call last)
../postprocess_final.ipynb Cell 4 line 4
2 kernel_sigma = 0.8/2.355 #80pm FWHM
3 haadf_img = np.sum(vd.data[:,:,40:],axis=2)
----> 4 ss = source_size(haadf_img, rx, ry, sigma=kernel_sigma)
5 shot = apply_poisson_noise_STEM(ss, dose=dose)
File ../site-packages/pyprismatic/process.py:236, in source_size(data, rx, ry, sigma)
234 ryy = ryy-ry[len(ry)//2-1]
235 rr = np.sqrt(rxx**2.0 + ryy**2.0)
--> 236 source_size_kernel = rad_gaussian(rr, kernel_sigma)
238 return signal.convolve2d(data, source_size_kernel, 'same')/signal.convolve2d(np.ones(np.shape(data)), source_size_kernel, 'same')
NameError: name 'kernel_sigma' is not defined
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When trying to run the example notebooks I ran into this error, with the source_size function seems the kernel_sigma should just be sigma:
NameError Traceback (most recent call last)
../postprocess_final.ipynb Cell 4 line 4
2 kernel_sigma = 0.8/2.355 #80pm FWHM
3 haadf_img = np.sum(vd.data[:,:,40:],axis=2)
----> 4 ss = source_size(haadf_img, rx, ry, sigma=kernel_sigma)
5 shot = apply_poisson_noise_STEM(ss, dose=dose)
File ../site-packages/pyprismatic/process.py:236, in source_size(data, rx, ry, sigma)
234 ryy = ryy-ry[len(ry)//2-1]
235 rr = np.sqrt(rxx2.0 + ryy2.0)
--> 236 source_size_kernel = rad_gaussian(rr, kernel_sigma)
238 return signal.convolve2d(data, source_size_kernel, 'same')/signal.convolve2d(np.ones(np.shape(data)), source_size_kernel, 'same')
NameError: name 'kernel_sigma' is not defined