- Move all linux_configuration scripts into two semantic categories:
- single_use/: scripts run once manually (fresh install, fixes, setup)
- periodic_background/: scripts run by systemd timers or daemons
- Preserve existing subdirectory structure within each category
- Fix lib/common.sh source paths for new directory depths
- Fix CONFIG_DIR depth in setup_periodic_system.sh and check_and_enable_services.sh
- Update all references in tests, fresh-install/main.sh, nix modules, and docs
- Fix check_polling_antipatterns.sh false positives (||, regex |, case patterns, jq strings)
- Fix pre-existing mypy exclusion path and type annotations for moved tools/ directory
- Rewrite check_polling_antipatterns.sh using awk (no bash regex loops); add require_serial: true
- Move 7 loose top-level Markdown reports under docs/cleanup-2026-05/.
- Relocate batch3_bloatware_uninstall.sh into phone_focus_mode/ where its
ADB/phone wiring belongs.
- Delete tracked out.json (empty puzzle_solver fixture).
- Remove untracked clutter (mp4/wav/lcov/log/txt) from the working tree.
Adds 1410710, 10500, 813780, 489830 to PROTECTED_APP_IDS so the enforcer
will not uninstall them. Existing tests patch the set, so test outcomes
are unaffected.
- music_parallelism.sh + thesis_work_tracker.sh: tighter state-output and
error paths; expanded regression tests.
- hosts-file-monitor.sh + shutdown-timer-monitor.sh: harden against partial
failures, matching new test branches.
- i3blocks persist_common.sh helper improved (consumed by activitywatch /
warp status blocks).
- setup_midnight_shutdown.sh + thesis_work_status.sh: state parsing tuned.
- pacman_blocked_keywords.txt: drop one obsolete entry.
- New test_thesis_work_status.sh regression script.
All six bash regression tests pass.
Adds a sick-day exemption flow with debt tracking so workout enforcement
can be skipped on declared sick days while preserving phone-verification
and shutdown invariants.
- New _sick_tracker module persists sick_history.json (days, debt, commitments).
- New _sick_dialog integrates declaration into the lock UI flow.
- _ui_flows.py and screen_lock.py consult tracker before enforcing workouts.
- gitignore sick_history.json (runtime state, like sick_day_state.json).
- 304 tests pass; 100% branch coverage on every screen_locker file.
