bioptimus.preprocess.wsi.models.bioptimus_mask

Remote tissue segmentation mask model. Wraps a tissue segmentation EndpointModel as a TissueMaskModel, forwarding each ModelRequest to the remote tissue segmentation endpoint.

BioptimusTissueMaskModel

class BioptimusTissueMaskModel(backbone: EndpointModel)

Tissue mask model backed by a segmentation endpoint. Forwards each ModelRequest to the EndpointModel and returns the ModelResponse.

An EndpointModel configured for tissue segmentation.

Example:

from bioptimus.models.backbones import Backbone

backbone = Backbone(
    "tissue-seg", base_url="http://localhost:8080"
)
model = BioptimusTissueMaskModel(backbone)
response = model.process(request)

tile_spec

@property
def tile_spec() -> TileSpec | None

Returns the tile spec from the backbone’s model spec.

process

def process(request: ModelRequest) -> ModelResponse

Sends a request to the remote tissue segmentation endpoint.

A ModelRequest containing the tile image and metadata.

Returns: A ModelResponse with the segmentation output.

process_async

async def process_async(request: ModelRequest,
                        session: Any = None) -> ModelResponse

Sends a request asynchronously to the segmentation endpoint.

A ModelRequest containing the tile image and metadata.

An aiohttp.ClientSession for connection pooling.

Returns: A ModelResponse with the segmentation output.

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Reference

bioptimus.preprocess.wsi.models.bioptimus_mask

BioptimusTissueMaskModel

tile_spec

process

process_async

​BioptimusTissueMaskModel

​tile_spec

​process

​process_async

BioptimusTissueMaskModel

tile_spec

process

process_async