Processing WSIs

🌐 Service Address

This service accepts PUT requests at the following endpoint:

http://rayservice-qc-serve-svc.rationai-jobs-ns.svc.cluster.local:8000/

Each request needs a path to the WSI to be processed and an output directory, where the resulting masks will be stored. Additionally, you can specify what QC checks you want to include (all currently available are run by default).

Service accessibility

Please note that the service is only accessible from within the secure cluster.

Tip

Each successful request returns an xOpat link containing the processed WSI, enabling a quick visual inspection of the generated masks. The masks are displayed in the same format as in the QC report.

🧬 Structure of the PUT Request

🔒 Required parameters

The request body must include:

Parameter Name	Type	Description
wsi_path	string	Full path to the target WSI (e.g., "/mnt/data/Projects/FNBrno/2k_prostates_2024_tiff_packed/133-24-4-HE.tiff")
output_path	string	Path to the directory where output masks will be saved (e.g., "/mnt/data/trash-bin/"). The directory should already exist. Any files with the same name as the created masks will be overwritten.

🎛️ Optional Parameters

Optionally, you can include the following parameters:

Parameter Name	Type	Default Value	Description
mask_level	int	\(3\)	WSI level from which the tissue masks used for filtering of the tiles are created.
sample_level	int	\(1\)	WSI level from which the processed tiles are created.
check_residual	bool	True	Toggles the Residual Artifacts Detection.
check_folding	bool	True	Toggles the Folding Detection.
check_blur	bool	True	Toggles the Blur Detection.
wb_correction	bool	True	Toggles the White Balance Correction preprocessing.