CIDC-1429 CIDC-1422 bump API for ctDNA string values, actually apply all permissions on upload

[scvannost]

Parallels:

• CIDC-1422 add string for null values cidc-schemas#544

What

• Bump schemas
  • Add possibility for string values to some ctdna analysis columns for null values
• Include cross-trial and cross-assay permissions when implementing them for a new upload job
  • wasn't including any permission where either trial_id or upload_type was null

Why

• Schemas: 10047 ctdna analysis contains null values
• If not applied at upload, then need to reclick or pubsub-trigger afterwards to implement correct permissions on new files.
  Not necessarily the only source of this issue, but definitely contributes

How

• Switch from filter_by kwarg filtering to filter hybrid property filtering.

Remarks

• Don't include cross-assay ie upload_type null if the upload is clincal_data
• Always include trial_id null
• Added both cross-trial and cross-assay permissions to test of updated functions
• Also added missing grant_lister_permission call for each user

Checklist

Please include and complete the following checklist. You can mark an item as complete with the - [x] prefix:

• Tests - Added unit tests for new code, regression tests for bugs and updated the integration tests if required
• Formatting & Linting - black and flake8 have been used to ensure styling guidelines are met
• Type Annotations - All new code has been type annotated in the function signatures using type hints
• Docstrings - Docstrings have been provided for functions
• Documentation - README and CHANGELOG have been updated to explain major changes & new features
• Package version - Manually bumped the API package version in init.py