# Meeting Notes

## 2024-06-11

### Agenda

* Local checks to do before PRs: 

In gn3, make sure to run:
 
> pylint main.py setup.py wsgi.py setup_commands tests gn3 scripts
> TODO jnduli run this: mypy --show-error-codes .
> pytest -k unit_test

* Set up new DB before sync + fixing any problems that occur: DONE, no errors after Jnduli set up new DB.

### Generif Indexing

* Probeset data exists in SQL. Generif metadata exists in RDF.
* Write code that queries RDF for Generif metadata and enriches exising Probeset query.
* DONE: checksums in Generif rdf output
* TODO: jnduli look at xapian docs and their example for python bindings
* TODO: bonfacem makes sure tux02 indexing works
* TODO: bonfacem make changes to mcron and guix-machines.

### How would GeneWiki work?

* GeneWiki = GeneRif data from NCBI
* Workflow would be similar to Generif Indexing. We need to figure out if we'll need an extra RDF query or if we can modify the existing SPARQL query.
* TODO: jnduli attempts to add stronger types to index-genenetwork script, to make it explicit that we're using MonadicDicts.
* TODO: bonfacem makes sure that mypy in CI runs against the index-genenetwork script.