HD-BET import error on clean install

[jlukic]

Following the quickstart notebook, src/preprocessing/mri_preprocess_3d_simple.py fails on line 7:

from HD_BET.hd_bet import hd_bet
ModuleNotFoundError: No module named 'HD_BET.hd_bet'

The available pip versions of HD-BET (1.1 and 2.x) use different import paths:

• v1.1: from HD_BET.run import run_hd_bet
• v2.x: from HD_BET.hd_bet_prediction import get_hdbet_predictor, hdbet_predict

Could you clarify which version or install method the preprocessing script expects? Happy to submit a PR once I know the intended target.

Environment:

• Python 3.12
• Installed dependencies via pip per README