def volume_to_vector_array_to_obj_file(
image,
output_path,
voxel_size=50,
step_size=1,
threshold=0,
deal_with_regions_separately=False,
):
if deal_with_regions_separately:
for label_id in np.unique(image):
if label_id != 0:
filename = append_to_pathlib_stem(
Path(output_path), "_" + str(label_id)
)
image = image == label_id
extract_and_save_object(
image,
filename,
voxel_size,
threshold=threshold,
step_size=step_size,
)
else:
extract_and_save_object(
image,
output_path,
voxel_size,
threshold=threshold,
step_size=step_size,
)
def volume_to_vector_array_to_obj_file(
image,
output_path,
invert_axes=[2],
voxel_size=10,
orientation="coronal",
step_size=1,
threshold=0,
deal_with_regions_separately=False,
):
oriented_binary = reorient_image(
image, invert_axes=invert_axes, orientation=orientation
)
if deal_with_regions_separately:
for label_id in np.unique(oriented_binary):
if label_id != 0:
filename = append_to_pathlib_stem(
Path(output_path), "_" + str(label_id)
)
image = oriented_binary == label_id
extract_and_save_object(
image,
filename,
voxel_size=voxel_size,
threshold=threshold,
step_size=step_size,
)
else:
extract_and_save_object(
oriented_binary,
output_path,
voxel_size=voxel_size,
threshold=threshold,
step_size=step_size,
)