[SOLVED] Problems with converting all slices into nii.gz at once

Problems with converting all slices into nii.gz at once

I'm using the following code to convert all my 332 npy slices into the nii.gz format:

import numpy as np
import nibabel as nib

file_dir = "D:/Volumes convertidos LIDC/"
fileNPY1 = "slice200.npy"
img_array1 = np.load(file_dir + fileNPY1) 
nifti_file = nib.Nifti1Image(img_array1 , np.eye(4))
nib.save(nifti_file, "D:/slices convertidos/slice200converted.nii.gz")

There are just too many slices for me (and tons of images) to keep doing it that way, is there a way to convert them all at once?

Solution

I don’t know nibabel, and I am not sure if I understand correctly what you are trying to do, but perhaps this will be helpful:

import numpy as np
import nibabel as nib

file_dir = "D:/Volumes convertidos LIDC/"
for i in range(332):
    fileNPY1 = f"slice{i}.npy"
    img_array1 = np.load(file_dir + fileNPY1) 
    nifti_file = nib.Nifti1Image(img_array1 , np.eye(4))
    nib.save(nifti_file, f"D:/slicesconvertidos/slice{i}converted.nii.gz")