Is your feature request related to a problem? Please describe.
Having to setup a full python project can be annoying, I'd like to be able to directly download the cohort I select from GDC.

Describe the solution you'd like
A cli version of minds where you can call it and provide the GDC cohort file as well as the output directory and it downloads all data.

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It would be wonderful if you could record your screen while using MINDS to build a cohort. Ideally, the vide should be < 1 min.

XKCD #927:

Anything that can go wrong will go wrong.

Help Write Test Functions for MINDS

I'm working on expanding test coverage for the MINDS framework to validate functionality and prevent regressions. Help writing unit and integration tests would be greatly appreciated!

Areas Needing Tests

Some key modules and flows that could benefit from testing:

• minds.update()
  • Validate data is imported correctly
  • Test incremental updates
• minds.build_cohort()
  • Test different query and filter combinations
  • Validate generated cohort data
• minds.download()
  • Test download of different cohort formats
  • Validate correct data is downloaded
• Database query interface
  • Unit test query building
  • Validate queries return expected results
• Core data processing modules
  • etl/ - Validate data transformations
  • integrate/ - Test multimodal integrations

Guidelines

When writing tests, please:

• Use PyTest for unit tests and pytest-docker for integration tests
• Follow file naming test_<module>.py
• Use descriptive assert statements
• Use fixtures and parametrize where applicable

Assistance Appreciated

Additional test coverage will go a long way to improving MINDS reliability and maintainability. Any help is greatly appreciated!