Modify `misc.logger` class to use instead Python's `logging` class

[panchoop]

The current project logs almost every step of the algorithm using an inbuilt class in misc.logger.
This class handles all[^1] printing to console commands and saving files into the \results folder.

The class itself is non-standard and could be improved by using instead Pythons one. One can profit from
multiple levels of specificity that can be given when executing the code.

Alternative, it should be possible to include silencing switches.