[Neuroimaging] RGB Nifti

[Fernando Pérez-García]

Dear Nibabel experts,

I'm trying to create an RGB nifti image from a PNG file. I've been messing
around with a working RGB nifti, in order to mimic the datatype found in
its header. So far I've managed to convert the image pixel-wise with for
loops, which is very slow. Do you know how this could be done in a faster
way?


My code:

import numpy as np
import Image
import nibabel as nib

p = '/home/fernando/test/nii_rgb/TC1.png'
im = Image.open(p)

data = np.array(im)
data = np.rot90(data)
rgb = np.zeros((data.shape[0], data.shape[1], 1, 1), [('R', 'u1'), ('G',
'u1'), ('B', 'u1')])

for i in range(data.shape[0]):
    for j in range(data.shape[1]):
        rgb[i, j] = tuple(data[i, j, :])

nii = nib.Nifti1Image(rgb, np.eye(4))
nib.save(nii, p.replace('png', 'nii'))



Thanks in advance,

Fernando
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