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... uncertainty demo notebook. Description of Changes This adds a Jupyter notebook (and example mechanism) for running UQ on a surface mechanism. There s also a small bugfix for the uncertainty tool where it ...

Adds basic utilities to load and save FluidFlower snapshots in prescribed format, and a notebook for interaction with data stored in the shared folder.

@AlrauneZ Great work on the notebooks! I have fixed the linting issues and merged your work with mine. If you pull from this branch you should get the updated version without any issues. Also, example_mibitrans_anatrans now contains the diversity model comparison figure we discussed last Monday.
documentation

Description This PR contains DPO and ORPO example notebooks. These notebooks will also serve as integration tests for DPO. Tests Ran the notebooks manually. Checklist Before submitting this PR ...

Integrate nbsearch (Solr-backed notebook search) into the Mynerva action protocol so the LLM can discover and read notebooks across the server, not just the one currently open. Three new query ...
enhancement

Add Colab notebook with full evaluation workflow: - Covers model training (Phase 1 classifier and localizer) - Includes demo runs and codebase inspection - Implements Evaluation Part 1: Google ...