Upgrade Flask dependency

[kaitj]

The problem

Some package dependencies have upgraded and introduced new, breaking changes (e.g. see #224, where version used had to be reverted and pinned). Long term, Flask is also at 3.0 at the time of writing this issue, while the app is using 2.x. Long-term, an update should be made to the new version to resolve these dependency issues.

Environment

• Browser (with version)
• Dropdown menu option
• File uploaded (if applicable)

PR template was adopted from appium

[kaitj]

Started to work on this to update all dependencies. Almost complete, with a few more task items (see below).

Tasks:

• Get database working again
• Get sandbox orcid oauth working
• Fix ability to read from .env file -> currently set directly in environment in dev
• Update developer setup / testing instructions