[Neuroimaging] [nibabel] Issue when saving nifti files

[Sulantha Sanjeewa]

Dear all,
I am having trouble saving nifti files using nibabel. This is a simple load
- mask - save situation. However, when I save, the resultant image is only
two values [min and max] of the original image (almost like a mask). Can
you help me on this. I have added the code here. and a link to the three
files as well.
Thanks a lot for the help.
Best regards,
Sulantha.

Files Link: https://drive.google.com/open?id=0B-TWCTRv7UM1a0hxaWotbjRSSUE
Code:

img = nibabel.load('I300779.nii')
imgData = img.get_data()
mask = nibabel.load('FullBrain.nii')
maskData = mask.get_data()
maskedImgData = imgData[maskData>0.9]
new_image = numpy.zeros(maskData.shape)
new_image[maskData>0.9] = maskedImgData
aff = mask.affine
nibabel.save(nibabel.Nifti1Image(new_image, aff), 'I300779_m.nii')
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