chore: Update dependencies (#16460)

### What does this PR try to resolve?

Closes #16453

### How to test and review this PR?

RE `rusqlite`

The "natural" integer type is `i64` so infallible `u64` conversions are
misleading.
For our use case, I took the short route of enabling the `u64`
conversions since we likely don't need that last bit.

Author: weihanglo