Final PR for Sem 2: Graded and Discriminating Essence + Refactor

[vincepick]

Includes full functionality for Graded and Discriminating instance generation using Essence problem models. This PR includes support for problems with and without a repair model, a significant refactor of the "wrapper.py" file, as well as numerous additional features.

[vincepick]

For a more detailed account of changes and justifications, please see the associated report.

The above testing pipeline passes, indicating both the newly implemented and existing functionalities should be present. There is a current issue with the Docker file pipeline I believe due to this being a merge request from the fork, but it isn't an actual error and should work again once this is merged.

The experiments directory was deleted from the main branch for an easier submission. However, if one wishes to see example runs, please see the discrim_teardown branch in my fork of AutoIG, which still contains a full experiments directory. This original branch final_essence still does contain the submission_outputs directory which contains the outputs used within the report, it was deleted from here to make the PR easier to review.

Below is the directory tree of all files edited to enable the new functionality. Click on any file to view the changes in this PR.

.
|-- .github/workflows/
│   |-- run_pr_tests.yml
│   |-- run_push_tests.yml
|-- scripts/
│   |-- evaluators/
│   │   |-- essence_discriminating.py
│   │   |-- essence_graded.py
│   |-- essence_pipeline_utils.py
│   |-- wrapper.py
│   |-- collect_results.py
│   |-- extract-md5sum.sh
│   |-- setup.py
│   |-- wrapper_helpers.py
│   |-- conf.py
│   |-- scenario.R
│   |-- testScripts
|-- DEV_README.md
|-- Dockerfile