Upgrade skills_sync manifest to v2 format (name:origin_hash). The origin
hash records the MD5 of the bundled skill at the time it was last synced.
On update, the user's copy is compared against the origin hash:
- User copy == origin hash → unmodified → safe to update from bundled
- User copy != origin hash → user customized → skip (preserve changes)
v1 manifests (plain names) are auto-migrated: the user's current hash
becomes the baseline, so future syncs can detect modifications.
Output now shows user-modified skills:
~ whisper (user-modified, skipping)
27 tests covering all scenarios including v1→v2 migration, user
modification detection, update after migration, and origin hash tracking.
2009 tests pass.
- Restored 21 skills removed in commits 757d012 and 740dd92:
accelerate, audiocraft, code-review, faiss, flash-attention, gguf,
grpo-rl-training, guidance, llava, nemo-curator, obliteratus, peft,
pytorch-fsdp, pytorch-lightning, simpo, slime, stable-diffusion,
tensorrt-llm, torchtitan, trl-fine-tuning, whisper
- Rewrote sync_skills() with proper update semantics:
* New skills (not in manifest): copied to user dir
* Existing skills (in manifest + on disk): updated via hash comparison
* User-deleted skills (in manifest, not on disk): respected, not re-added
* Stale manifest entries (removed from bundled): cleaned from manifest
- Added sync_skills() to CLI startup (cmd_chat) and gateway startup
(start_gateway) — previously only ran during 'hermes update'
- Updated cmd_update output to show new/updated/cleaned counts
- Rewrote tests: 20 tests covering manifest CRUD, dir hashing, fresh
install, user deletion respect, update detection, stale cleanup, and
name collision handling
75 bundled skills total. 2002 tests pass.
