Import of nnunet (v1) fails when running pre-processing #23
Description
I followed the instructions in https://github.com/MIC-DKFZ/nnUNet/blob/master/documentation/installation_instructions.md and cloned the repo locally and used pip install -e . but it only installs the v2 so in the prepocessing i get an error:
Traceback (most recent call last):
File "C:\Users\asiel\cathAlert\experimental\MedNeXt\nnunet_mednext\experiment_planning\nnUNet_plan_and_preprocess.py", line 170, in <module>
main()
File "C:\Users\asiel\cathAlert\experimental\MedNeXt\nnunet_mednext\experiment_planning\nnUNet_plan_and_preprocess.py", line 166, in main
exp_planner.run_preprocessing(threads)
File "C:\Users\asiel\cathAlert\experimental\MedNeXt\nnunet_mednext\experiment_planning\experiment_planner_baseline_3DUNet.py", line 434, in run_preprocessing
preprocessor_class = recursive_find_python_class([join(nnunet_mednext.__path__[0], "preprocessing")],
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Users\asiel\cathAlert\experimental\MedNeXt\nnunet_mednext\training\model_restore.py", line 38, in recursive_find_python_class
m = importlib.import_module(current_module + "." + modname)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "C:\Users\asiel\anaconda3\envs\mednext\Lib\importlib\__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "<frozen importlib._bootstrap>", line 1204, in _gcd_import
File "<frozen importlib._bootstrap>", line 1176, in _find_and_load
File "<frozen importlib._bootstrap>", line 1126, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed
File "<frozen importlib._bootstrap>", line 1204, in _gcd_import
File "<frozen importlib._bootstrap>", line 1176, in _find_and_load
File "<frozen importlib._bootstrap>", line 1126, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed
File "<frozen importlib._bootstrap>", line 1204, in _gcd_import
File "<frozen importlib._bootstrap>", line 1176, in _find_and_load
File "<frozen importlib._bootstrap>", line 1140, in _find_and_load_unlocked
ModuleNotFoundError: No module named 'nnunet'
I would appreciate any help :)