Vacuuming

https://github.com/MerginMaps/python-api-client/blob/master/mergin/utils.py#L99

Vacuuming could be useful even for gpkgs without the -wal sidecar

Vacuuming takes some time, so we should check that it is worth it.

Sources
https://gdal.org/en/stable/drivers/vector/gpkg.html
When dropping a table, or removing records from tables, the space they occupied is not immediately released and kept in the pool of file pages that SQLite may reuse later. If you need to shrink the file to its minimum size, you need to issue an explicit "VACUUM" SQL request.

https://sqlite.org/lang_vacuum.html
When content is deleted from an SQLite database, the content is not usually erased, but rather the space used to hold the content is marked as being available for reuse.

mergin/utils.py の99行目から始め、リンクされている GDAL GeoPackage と SQLite VACUUM のガイダンスを読んでください。GeoPackages に -wal サイドカーファイルがない場合も含め、現在のロジックが VACUUM を実行する価値があるかどうかをどのように判断しているか確認してください。不要な VACUUM を実行せずにそのケースを判断できれば完了です。プロジェクトに既存のテストで検証してください。