Re: [Numpy-discussion] Loading large NIfTI file -> MemoryError

On 31.12.2013 14:13, Amira Chekir wrote:

Hello together,

I try to load a (large) NIfTI file (DMRI from Human Connectome Project, about 1 GB) with NiBabel.

import nibabel as nib img = nib.load("dmri.nii.gz") data = img.get_data()

The program crashes during "img.get_data()" with an "MemoryError" (having 4 GB of RAM in my machine).

Any suggestions?

are you using a 64 bit operating system? which version of numpy? assuming nibabel uses np.load under the hood you could try it with numpy 1.8 which reduces excess memory usage when loading compressed files.