Flatten packages structure and rename ctx functions

[pyramation]

Flatten packages structure and rename ctx functions

Summary

This PR makes three main changes to simplify the codebase:

1. Flattened package structure: Moved all 21 packages from nested category directories to a flat packages/* structure. Previously packages were organized under packages/utils/*, packages/security/*, packages/data-types/*, etc. Now all packages live directly under packages/.

2. Renamed ctx JWT accessor functions: Renamed ctx.user_id() → ctx.uid() and ctx.user_agent() → ctx.uagent() in the jwt-claims package to provide a more succinct API. Added documentation comments to all JWT claim functions in ctx, jwt_public, and jwt_private schemas.

3. Removed unused jwt_public.current_group_ids() function: Per user request, removed the group_ids function since group/org membership is not handled at the JWT level in this project.

Updated workspace configuration files (pnpm-workspace.yaml, pgpm.json) to reflect the simplified flat structure.

Updates since last revision

• Fixed CI workflow (.github/workflows/ci.yml) to use flat package paths in the test matrix (e.g., jwt-claims instead of security/jwt-claims)
• Updated pnpm-lock.yaml to reflect new package locations
• Removed jwt_public.current_group_ids() function and all related files (deploy/revert/verify SQL, tests, README documentation)

Review & Testing Checklist for Human

• Verify ctx function renames are correct: The pgpm.plan file was updated to rename change identifiers from schemas/ctx/procedures/user_id to schemas/ctx/procedures/uid. If there are any existing database deployments, this could cause migration issues.
• Verify group_ids removal is intentional: The jwt_public.current_group_ids() function was completely removed. Confirm this is desired and no code depends on it.
• Test workspace resolution: Run pnpm install and verify all 21 packages are correctly discovered with the new flat structure
• Run package tests: Execute pnpm test to verify the packages still work after restructuring

Recommended test plan:

pnpm install
pnpm test
# If you have a test database, verify pgpm deploy works

Notes

• The bundled SQL file packages/jwt-claims/sql/pgpm-jwt-claims--0.15.2.sql was updated with the new function names, comments, and group_ids removal
• All file moves were detected as renames by git (100% similarity) - no content was lost
• User confirmed there are no downstream users, so the breaking changes to ctx functions and group_ids removal are acceptable
• CI workflow matrix updated to match new flat package structure

Link to Devin run: https://app.devin.ai/sessions/b46e88cf5be04982894f8e94948174e6
Requested by: Dan Lynch (@pyramation)

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