Refactor settings, tox config, and fix linting/type hint errors

[hakbailey]

Description

In working on adding the dispatcher service and using docker-compose, some changes to the project settings and dependency management were identified that seemed better addressed in a separate PR. Since changing these settings also necessitated making changes to some of the tox configuration, I decided to go ahead and refactor that as well to move it into the pyproject.toml file and tighten up some of the lint and type check requirements.

Full set of changes are as follows:

• Add files to .gitignore
• Move tox.ini configurations to pyproject.toml to consolidate tool settings and follow the tox recommendations
• Update lint and check tool configurations to be more strict, per tool recommendations
• Fix linter and type check errors across the repository
• Add to and update project information in pyproject.toml
• Move all dependencies to pyproject.toml and delete requirements.in files
• Organize Makefile and add command to generate requirements files
• Update settings configuration and add development and testing default settings files
• Update Github workflows to use tox envs, follow standard format, and use latest supported Python version

Note that these changes do not impact code functionality at all.

[sonarqubecloud]

Quality Gate failed

Failed conditions
2 Security Hotspots

See analysis details on SonarQube Cloud