Profile the code in a standard execution to identify bottlenecks

[Profiling of the code](https://docs.python.org/3/library/profile.html) will be done with the [current examples](https://github.com/SGIModel/MUSE_OS/tree/develop/run/example) to identify bottlenecks in the execution and those parts of the code that could be improved in the future.

The output of completing this issue would be a list of issues identifying those areas that need improvement from the performance perspective.