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dataspec

Tilespec data model

This package provides an abstraction of the image and analysis data for EM analysis. The baseline for this is the tilespec - a JSON file of the locations of image tiles along with their transforms mapping into a 3D space.

Usage:

import dataspec
spec = dataspec.load("/data/Analysis/tilespecs")
for section in spec:
    for mfov in section:
        for tilespec in mfov:
            img = tilespec.imread()
            # do something

The package comes with a default loader for JSON tilespecs. Additional loaders can be used if they are registered as entry points for the org.rhoana.dataspec group. The signature of a loader is the same as dataspec.load - the input is a path and the output should yield a sequence of sequences of Tilespec objects. If a loader cannot load tilespecs from a path, it should raise the LoaderCannotReadException and dataspec.load will try additional registered entry points until it finds one that can.

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