Update python dependencies

[annakrystalli]

Partially started in #240

Upgrade dependencies in conda + requirements.txt setup

Summary

We are seeing deprecation warnings and build errors in the current development setup (conda + requirements.txt). Some packages are outdated (e.g. black still pulling in old typed-ast), which leads to compatibility and security issues.

Tasks

• Run a security scan of current Python dependencies (pip-audit -r requirements/local.txt)
• Upgrade Python packages to their latest compatible versions
• Update requirements/local.txt with pinned, upgraded versions (pip freeze)
• Verify that the Django app runs and passes all tests after upgrades

Acceptance Criteria

• No failing installs on supported OSes (Linux, macOS, Windows)
• No deprecation or build warnings in normal setup
• Security scans report no known vulnerabilities
• Documentation updated if installation commands or package versions change