Bump and clean dependencies

[wduguay-air]

Context

Dependencies for third party environments are outdated and require a messy installation process.

Solution

• Bump gymnasium to v0.29 and PettingZoo to v1.23.1
• Small changes to support latest Gymnasium version.
• Add SuperSuit back in the requirement.txt and clean separate install instructions.
• Pin mujoco version to v2.3.3 due to the same mujoco issue reported by Gymnasium for the hopper environment: https://github.com/deepmind/mujoco/issues/833
• Clean out some dependencies for past ML flow bugs
• Update the space serialization to fully support serialization and deserialization of Gym and Gymnasium spaces. Gym support is still necessary for some implementations such as overcooked.
• Switch all usage of gym to gymnasium.
• Rename petting zoo instances to PettingZoo.
• Add functional test for overcooked
• Decrease functional test timeout time from 500s to 120s (longest test takes about 60s) since if all are failing, it timeouts the gitlab job before pytest is done, which will prevent pytest from printing the std err call of failed tests. Not ideal for debugging.

closes #142