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import nibabel as nib
from nibabel.processing import resample_to_output
from skimage.measure import marching_cubes
def nifti_to_glb(path, output="prediction.obj"):
# load NIFTI into numpy array
image = nib.load(path)
resampled = resample_to_output(image, [1, 1, 1], order=1)
data = resampled.get_fdata().astype("uint8")
# extract surface
verts, faces, normals, values = marching_cubes(data, 0)
faces += 1
with open(output, 'w') as thefile:
for item in verts:
thefile.write("v {0} {1} {2}\n".format(item[0],item[1],item[2]))
for item in normals:
thefile.write("vn {0} {1} {2}\n".format(item[0],item[1],item[2]))
for item in faces:
thefile.write("f {0}//{0} {1}//{1} {2}//{2}\n".format(item[0],item[1],item[2]))
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