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Registration Runtime

Registration now has one active method: image-gen registration.

Active Files

  • src/langslice_harness/registration/core.py -- public wrapper.
  • src/langslice_harness/registration/runtime.py -- orchestration and debug artifacts.
  • src/langslice_harness/registration/solver.py -- deterministic affine/TPS helpers retained for export math and tests.
  • src/langslice_harness/registration/types.py -- result and annotation data classes.
  • src/langslice_harness/harness/registration/image_gen_registration.py -- candidate pipeline.
  • src/langslice_harness/harness/registration/providers.py -- image generation provider adapters.
  • src/langslice_harness/harness/registration/runner.py -- optional ADK review loop.

Pipeline

  1. Load the histology slice and atlas slice at the chosen AP coordinate.
  2. Generate an atlas-colored image aligned to the histology.
  3. Register the generated target to the atlas color map with itk-elastix.
  4. Warp the atlas through the recovered transform.
  5. Extract VisuAlign-compatible markers from the B-spline control points.
  6. Return all review outputs: generated atlas target, warped atlas, and warped-border overlay.

Modes

  • direct -- generate one candidate and return it.
  • agentic -- expose the candidate generator to an ADK review agent, capped at three candidates.

Notes

The runtime exposes one registration path: image-gen registration.