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diff --git a/topics/meetings/jnduli_bmunyoki.gmi b/topics/meetings/jnduli_bmunyoki.gmi new file mode 100644 index 0000000..73b48d5 --- /dev/null +++ b/topics/meetings/jnduli_bmunyoki.gmi @@ -0,0 +1,31 @@ +# 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. |