chore: implement centralized path registry and file organization conventions
Add PathRegistry for centralized path management:
- Create internal/config/paths.go with PathRegistry type
- Binary paths: BinDir(), APIServerBinary(), WorkerBinary(), etc.
- Data paths: DataDir(), JupyterStateDir(), ExperimentsDir()
- Config paths: ConfigDir(), APIServerConfig()
- Helper methods: EnsureDir(), EnsureDirSecure(), FileExists()
- Auto-detect repo root by looking for go.mod
Update .gitignore for root protection:
- Add explicit /api-server, /worker, /tui, /data_manager rules
- Add /coverage.out and .DS_Store to root protection
- Prevents accidental commits of binaries to root
Add path verification script:
- Create scripts/verify-paths.sh
- Checks for binaries in root directory
- Checks for .DS_Store files
- Checks for coverage.out in root
- Verifies data/ is gitignored
- Returns exit code 1 on violations
Cleaned .DS_Store files from repository
e127f97442