fmrisim notebook example: wrong dimensions #541
Description
I have been running the fmrisim jupyter notebook using my own data. It went well until I hit this cell:
# Specify the parameters for signal
signal_method = 'CNR_Amp/Noise-SD'
signal_magnitude = [0.5]
# Where in the brain are there stimulus evoked voxels
signal_idxs = np.where(signal_volume == 1)
# Pull out the voxels corresponding to the noise volume
noise_func = noise[signal_idxs[0], signal_idxs[1], signal_idxs[2], :].T
# Compute the signal appropriate scaled
signal_func_scaled = fmrisim.compute_signal_change(signal_func,
noise_func,
noise_dict,
magnitude=signal_magnitude,
method=signal_method)That gave me this error:
ValueError Traceback (most recent call last)
/scratch/marzwi/slurm_job_55885/ipykernel_2104266/2965812987.py in <module>
13 noise_dict,
14 magnitude=signal_magnitude,
---> 15 method=signal_method)
~/PycharmProjects/wp15/BIDScramble/bidscramble/fmrisim.py in compute_signal_change(signal_function, noise_function, noise_dict, magnitude, method)
2856 if signal_function.shape != noise_function.shape:
2857 msg = 'noise_function is not the same size as signal_function'
-> 2858 raise ValueError(msg)
2859
2860 # Scale all signals that to have a range of -1 to 1. This is so that any values less than this will be scaled appropriately
ValueError: noise_function is not the same size as signal_functionIf I compare it to this input signal size I see that signal_func is one element too long:
signal_func.shape, noise_func.shape, nii.shape
((591, 27), (590, 27), (104, 104, 66, 590))Any suggestions on how to fix this