Changes supporting use of pipelines in trec-adaptive-feedback project:
generally, accessors' and models' IDs can be set with respective argument
test client methods now handle response success check and variable parsing
implemented functional threshold segmentation and (in base.roiset) classification models; threshold is relative to dataset full range (0.0 to 1.0)
consequently, more tests cover base package without dependency on ilastik
RoiSet returned by pipelines get IDs and are registered in server session, accesible at respective endpoints
Pydantic models only used by FastAPI now; underlying model, accessor, and pipeline functions should interact with python objects and parameter dictionaries only
RoiSet filters also include minimal and diagonal height, width dimension; are applied before time-intensity pixel array operations to increase performance
performance improvement when passing patch stacks to ilastik pixel classifier
RoiSet.classify_by can optionally filter by additional classification columns, e.g. to implement intensity gating
Christopher Randolph Rhodes authored