Created
October 10, 2016 14:04
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Binning function for hyperspy signals
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def mybin(s, xbin=1, ybin=1, sbin=1): | |
"""Return spectrum s binned by factors xbin, ybin, sbin""" | |
if (xbin < 1) or (ybin < 1) or (sbin < 1): | |
raise ValueError("One of your binnings is smaller than 1. For signal axis to remain constant, leave as 1") | |
if all(n==1 for n in (xbin, ybin, sbin)): | |
print("Not binning because all binnings == 1") | |
return s # End Early | |
# Get signal channels | |
signal_channels = s.axes_manager.signal_shape[0] | |
# Make sure signal channel length is a multiple of two | |
if signal_channels % 2 != 0: | |
#print("Signal axis length is odd-numbered! Cropping spectrum by 1 signal channel!") | |
s = s.isig[0:-1] | |
signal_channels = s.axes_manager.signal_shape[0] | |
# Check if image is a single spectrum: | |
try: | |
s.axes_manager.navigation_shape[0] | |
except IndexError: | |
# This is a 0D Single Spectrum, don't bin X or Y | |
single_spectrum = True | |
else: | |
single_spectrum = False | |
nav_x_channels = s.axes_manager.navigation_shape[0] | |
if single_spectrum: | |
print("Binning " + s.metadata.General.title + " by ( | " + str(sbin) + ").") | |
s = s.rebin((signal_channels/sbin,)) | |
print("New shape: " + str(s.data.shape)) | |
return s | |
# Make sure nav X pixel length is a multiple of two | |
if nav_x_channels % 2 != 0: | |
#print("x-axis length is odd-numbered! Cropping spectrum by 1 signal channel!") | |
s = s.inav[:-1,:] | |
nav_x_channels = s.axes_manager.navigation_shape[0] | |
# Check if image is a Line profile: | |
try: | |
s.axes_manager.navigation_shape[1] | |
except IndexError: | |
#This is a 1D Line profile, don't bin the Y axis | |
line_profile = True | |
else: | |
# This is a 2D Spectrum Image Map | |
line_profile = False | |
nav_y_channels = s.axes_manager.navigation_shape[1] | |
if not line_profile: | |
if nav_y_channels % 2 != 0: | |
#print("x-axis length is odd-numbered! Cropping spectrum by 1 signal channel!") | |
s = s.inav[:,:-1] | |
nav_y_channels = s.axes_manager.navigation_shape[1] | |
if line_profile: | |
print("Binning " + s.metadata.General.title + " by (" + str(xbin) + " | " + str(sbin) + ").") | |
s = s.rebin((nav_x_channels/xbin, signal_channels/sbin)) | |
print("New shape: " + str(s.data.shape)) | |
else: | |
print("Binning " + s.metadata.General.title + " by (" + str(xbin) + ", " + str(ybin) + " | " + str(sbin) + ").") | |
s = s.rebin((nav_x_channels/xbin, nav_y_channels/ybin, signal_channels/sbin)) | |
print("New shape: " + str(s.data.shape)) | |
return s |
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