scipy is not installed as a requiremnt

[cvaske]

Describe the bug
Run ends with error due to a missing scipy import. I'm running a WGS trio from Illumina DRAGEN pipeline through Cravat with ClinVar, case-control, and SpliceAI modules.

To Reproduce
In the GUI:

1. Upload three VCF files.
2. Select "ClinVar", "SpliceAI", "Gene Ontology" as modules
3. Upload a case-control cohort in the "Additional Analysis" section.
4. Start the Annotation

Expected behavior
A completed run.

Desktop (please complete the following information):

Run on macOS, using pyenv for a virtual environment based on Python 3.12.1, with no pip installed packages other than open-cravat

Additional context
I've attached the run log, and the pip freeze output.

• log.txt
• pip-freeze-2024-06-20-missing-scipy.txt