AllenInstitute / AllenInstitute/ConnectsCommonConnectivity
Register SynapseConnectivityLong with a bulk validation mode
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- Dominant language
- Jupyter Notebook
- Stars
- 4
- Forks
- 1
- PR merge metrics
- No merged PRs in 30d
Description
Problem: registry entry is commented out because validate_for_write re-validates every row with pydantic — unusable at 8M rows; etl_v1dd_03 bypasses write_models with raw write_deltalake. A dead import remains in write_spec.py.
Fix: add a bulk mode (arrow-schema-level validation, optional row sampling); register overwrite_scoped on (project_id, dataset_id); route the notebook through write_models; remove the dead import.
Contributor guide
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start with the commented SynapseConnectivityLong registry entry and the validation path in write_spec.py, including validate_for_write and the dead import. Then inspect the etl_v1dd_03 notebook and its write_models/write_deltalake calls. Done means bulk Arrow-schema validation with optional sampling, scoped overwrite on project_id and dataset_id, notebook routing through write_models, and removal of the dead import.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- jupyter-notebook, python
- Domain
- data-engineering, databases
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Active
- Clarity
- Mostly clear
- Newbie friendliness
- 55/100