Code Cleanup

[DavidPCoster]

I ran the test suite and initially got "FileNotFoundError". I tracked this down to not having compiled cannonsim. I think this should be compiled automatically but am not sure how to implement this.

After compiling (manually) cannonsim, I got the following report:

tests_2023-09-29.log

To summarize:

========== 169 passed, 4 skipped, 15138 warnings in 424.01s (0:07:04) ==========

I think we should put some effort at reducing the 15138 reported warnings, since real problems might be hiding in this forest of warnings.

[DavidPCoster]

As part of this cleanup we should probably also look at the security report: https://github.com/UCL-CCS/EasyVVUQ/security