Un-deprecate scope and scopedir; add to CLI, tsconfig.json, and env vars

[cspotcode]

Implements and closes #1346

[codecov]

Codecov Report

Merging #1367 (2999490) into main (9afe3c3) will increase coverage by 0.13%.
The diff coverage is 100.00%.

❗ Current head 2999490 differs from pull request most recent head af614b4. Consider uploading reports for the commit af614b4 to get more accurate results
| Impacted Files | Coverage Δ | |
|---|---|---|
| src/bin.ts | 90.90% <100.00%> (+0.16%) | ⬆️ |
| src/configuration.ts | 96.66% <100.00%> (+0.23%) | ⬆️ |
| src/index.ts | 78.69% <100.00%> (+0.05%) | ⬆️ |