Fix unused arg in SlidingPatchWSIDataset

[drbeh]

Description

This PR removes map_level from SlidingPatchWSIDataset, which seems to be left from the previous changes and has not used anywhere. Also it updates the outdated docstring.

Types of changes

• Non-breaking change (fix or new feature that would not break existing functionality).
• In-line docstrings updated.

[wyli]

/build

[tangy5]

The dev on this WSI dataset class is great!
One general comment, can we have a SlidingWindowWSIDataset with Otsu masked regions in the future?
If we do direct SlidingWindow on WSI, there will be large regions (patches) are blank..
Maybe we can combine some basic functions of MaskedWSIDataset and this sliding window mechanism in the future.
Thanks

[drbeh]

The dev on this WSI dataset class is great!

One general comment, can we have a SlidingWindowWSIDataset with Otsu masked regions in the future?

If we do direct SlidingWindow on WSI, there will be large regions (patches) are blank..

Maybe we can combine some basic functions of MaskedWSIDataset and this sliding window mechanism in the future.

Thanks

Hi @tangy5, absolutely! We're going to address that soon with wsi sliding window splitter. Will keep you updated.

[siemdejong]

Off-topic, but what is the status on a MaskedSlidingPatchWSIDataset? Or is there an easy way to do this with the currently implemented WSI datasets which I'm currently missing? Should I open a new issue?

The dev on this WSI dataset class is great!
One general comment, can we have a SlidingWindowWSIDataset with Otsu masked regions in the future?
If we do direct SlidingWindow on WSI, there will be large regions (patches) are blank..
Maybe we can combine some basic functions of MaskedWSIDataset and this sliding window mechanism in the future.
Thanks

Hi @tangy5, absolutely! We're going to address that soon with wsi sliding window splitter. Will keep you updated.

[KumoLiu]

Hi @siemdejong, perhaps you could use this filter_fn in the WSISlidingWindowSplitter.

MONAI/monai/inferers/splitter.py

Line 307 in 4743945

filter_fn: a callable to filter patches. It should accepts exactly two parameters (patch, location), and

[siemdejong]

Thanks @KumoLiu! I was hoping for a solution that doesn't require WSISlidingWindowSplitter, as I would like use a dataset inheriting from monai.data.Dataset.

Mostly because I would prefer having a mappable Dataset and not a yielding iterator. So if only this filter_fn was available in SlidingPatchWSIDataset, that would be perfect.

Would this be something that could be easily added?