Make source code pip-installable and command line interface

[hdsassnick]

This PR adds the following enhancements/fixes:

• It adds the pyproject.toml file such that the package can be distributed via pypi and installed via pip.
• It adds the CLI 'pal_engine' to be called instead of 'python main.py'.
• All settings can be passed via command line arguments as well as a json-file or the original Python file.
• The typo dynamic_oracle_list is now deprecated.

TO-DOs:

• Update README.
• Add dependencies to pyproject.toml.

@zzc558: it would be great if you could double-check that the functionality is maintained. You should be able to pull this branch and run pip install . in the source directory (with the pyproject.toml file). And then mpirun pal_engine -sf al_setting.py in the 'project' directory. Everything else should work the same way as before. Your feedback is highly appreciated. If you agree with the changes, I would finish the TO-DOs and the PR can be merged.

Edit: All to-dos are done. This PR would be ready to be merged.