Datalist_file link broken in tutorial notebook auto_runner.ipynb

[alessando-guida]

Describe the bug

bug found in
https://github.com/Project-MONAI/tutorials/blob/main/auto3dseg/notebooks/auto_runner.ipynb

After the Hippocampus dataset is downloaded, the datalist_file is defined as:

datalist_file = os.path.join("..", "tasks", "msd", msd_task, "msd_" + msd_task.lower() + "_folds.json")

This is supposed to be located here:

'../tasks/msd/Task04_Hippocampus/msd_task04_hippocampus_folds.json'

however the file is never created and the path with the dataset paths is not dumpt in there as in other example notebooks. As a consequence, autorunner fails to run and generates the following error:

ValueError: Datalist file is not found ../tasks/msd/Task04_Hippocampus/msd_task04_hippocampus_folds.json

[KumoLiu]

Hi @alessando-guida, did you clone the whole repo? I think the "datalist_file" is located here instead of automatically downloading.

Hope it helps, thanks!

[alessando-guida]

Thanks for pointing me to the correct file. I had not cloned the entire repository, I was just trying to use the notebook. I ended up trying to use the dataset.json file that was downloaded with the dataset (Task04_Hippocampus) but I will now try with this new file.