Navi Code: Phase 1 — terminal-first profile, default profile mechanism, env/persona, tests ...

- Add navi_code profile (terminal-first coding assistant)
- Add NAVI_DEFAULT_PROFILE_ID setting and POST /sessions default profile fallback
- Add persona_navi_code.txt and .env.navi_code.example
- Add docs/plan_navi_code.md phased plan
- Update tests to verify default-profile selection in no-auth mode

Co-Authored-By: Claude <noreply@anthropic.com>

Fix review issues for NAVI_AUTH_ENABLED feature ...

- Return 503 from /auth/login and /auth/callback when NAVI_AUTH_ENABLED=false
- Return model_copy() of _ANONYMOUS_USER to prevent accidental mutation
- Clean up __import__(datetime) in auth DDL
- Reorder FakeChatSession definition before use in tests
- Remove dead monkeypatch code in no-auth integration fixture
- Add unit test for get_current_user_ws in no-auth mode
- Add integration tests rejecting OAuth endpoints in no-auth mode

Co-Authored-By: Claude <noreply@anthropic.com>

Add NAVI_AUTH_ENABLED switch for optional auth ...

- Add navi_auth_enabled setting (default true) to navi/config.py and .env.example
- When disabled, treat every request as anonymous admin user (id='anonymous')
- Create/update fixed anonymous navi_users row on startup
- Bypass OAuth/cookie/API-token resolution in navi/auth/deps.py
- Update /auth/status to return {enabled, configured}
- Log security warning on startup when auth is disabled
- Update webclient: skip fetchMe/login screen, show Local mode footer,
  expose /admin link, warn in API keys panel
- Rebuild webclient production bundle
- Add unit and integration tests for no-auth mode
- Update docs: auth.md, config.md, api.md, api_tokens.md, sessions.md,
  websocket.md, mechanics.md, index.md

Co-Authored-By: Claude <noreply@anthropic.com>

Remove offline_access from OAuth scopes ...

gnexus-auth does not support offline_access yet (SUPPORTED scopes are
only openid, email, profile, roles, permissions). Requesting it caused
invalid_scope error and login failures.

Keep refresh token support as-is — tokens are still issued and
refreshed, just bound to the SSO session lifetime.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Fix OAuth callback to handle missing code and error responses ...

FastAPI validated code/state as required query params before the
handler body ran, so any OAuth error response (e.g. invalid_scope
from offline_access, user denied consent) produced an opaque 422
"Field required" instead of a readable error message.

- Make code, state, error, error_description all optional with defaults
- Detect OAuth error responses and return a clear 400 with the error
- Guard state[:8] slicing when state may be None

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Make shared files and published content publicly accessible ...

Remove auth requirements from:
- GET /sessions/{id}/files/{filename} — direct download links (session ID
  acts as unguessable capability token)
- GET /sessions/{id}/content — published inline content list

Both endpoints still verify session exists and protect against path
traversal. File upload and file listing remain auth-gated.

Update tests to match new signatures.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Fix frequent OAuth logouts: offline_access scope, transient error handling, fetchMe resilience ...

- Add 'offline_access' to OAuth scopes so gnexus-auth issues offline
  refresh tokens instead of SSO-session-bound ones.
- Distinguish TokenRefreshException (invalid/expired refresh token)
  from transient network errors during token refresh:
  * TokenRefreshException → logout (token genuinely dead)
  * Other exceptions → fallback to cached user or API token
- Improve refresh failure logging with exc_type and error message.
- Frontend fetchMe: swallow non-401 errors so transient 5xx/network
  failures don't flash the login screen.

Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

Add persistent multi-session terminal tool with background support ...

- New TerminalManager module: named subprocess sessions per Navi session,
  background readers, event-sink streaming, idle auto-cleanup
- Refactor terminal tool to multi-action: run, open, close, list,
  status, send_input
- Add TerminalOutputDelta and TerminalClosed events for streaming
- Wire TerminalManager into AppContainer, orchestrator, and registry
- Persist session_metadata in Session model and pg_session_store
- Close all session terminals on session delete
- Webclient: handle terminal_output/terminal_closed WS events,
  display live terminal output in tool cards
- Update unit tests for new terminal actions

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Fix dead code in websocket.py — stream_start never sent on first message ...

websocket.py lines 301-308 were indented inside the `except` block after
`raise`, making them unreachable. This meant `stream_start` and
`_stream_to_client` never ran for the initial message send, so the client
saw no response until page reload (when the reconnect path took over).

Fix: dedent lines 301-308 so they execute after the try/except/finally
block on the normal success path.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Fix 19 issues found in full codebase review ...

Backend:
- Stop session auth bypass: require auth for owned sessions, reject anonymous with 401
- upload_file: stream chunks directly to disk instead of buffering in RAM
- MCP config: validate name against path traversal regex
- auth deps: cleanup stale refresh locks periodically
- auth routes: expire mobile auth states after 10 min to prevent unbounded growth
- compressor: meta-summarize existing summaries before compression; preserve assistant content when tool_calls present; rewrite hard_truncate to keep whole turns
- orchestrator: configurable WS replay buffer size; async cleanup/remove_websocket/clear_busy; fix run_recall ContextVar order to avoid deadlock on _build_agent failure; await cleanup in finally
- agent: persist image_msg in session.messages; remove archived messages from session after archive; remove duplicate StreamStopped yield on tool stop
- websocket: try/except around create_task with cleanup on failure; await remove_websocket

Frontend:
- App.vue: hashchange listener lifecycle in onMounted/onUnmounted
- MessageList.vue: passive scroll, flash timeout cleanup, archive scroll snapshot
- InputBar.vue: 300 ms debounce on draft save to localStorage
- SessionList.vue: remove :key from DynamicScroller to avoid remount jitter

Tests: 422 passed, 1 skipped

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add archive message pagination, configurable WS replay buffer ...

Backend:
- Add archive_threshold to Session model and getSession response
- Add next_before_seq to archive endpoint for cursor pagination
- Make WS replay buffer size configurable via WS_REPLAY_BUFFER_SIZE

Webclient:
- Add getArchivedMessages API function
- Add archive pagination state and loadArchivedMessages to chat store
- MessageList: auto-load older messages on scroll-to-top with scroll
  position preservation and loading spinner

Docs: update config.md with new env vars

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Fix broken MCP admin endpoints after deps refactor ...

Replace stale `_mcp_manager` module-level import with `get_mcp_manager()`
calls in admin endpoints. The module-level variable was removed during the
AppContainer refactor, causing 500 errors on:
- POST /admin/mcp/{server}/reconnect
- GET /admin/mcp/status
- POST /admin/mcp/test

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add client-side image resize and server-side image token budgeting ...

Client (useFileUpload.js):
- Resize images to max 1024px on longest side via Canvas before upload
- JPEG quality 0.9, preserves EXIF orientation
- Reduces typical phone photos from 8 MB → ~400-900 KB

Server (websocket.py):
- Increase limit to 8 images, 50 MB total payload

Server (agent.py):
- Before adding user message to session.context, estimate how many images
  fit in remaining context (500 tok/img, up to 80% of max_context_tokens)
- Images that don't fit are saved as resized JPEGs to session_files/
- References to saved images are appended to the user message text
  so Navi can view them later via image_view tool
- session.messages keeps ALL images for full UI history

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Fix MCP tool availability after health-check disconnect/reconnect ...

- connect() now calls _cleanup() first to avoid stale transport leaks.
- mark_disconnected() clears _session so _ensure_connected() knows
  the client truly needs a fresh session.
- register_mcp_tools() is no longer a no-op; it re-registers all
  connected MCP tools so reload_tools correctly restores them.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Apply review fixes to API token auth system ...

Backend:
- navi/auth/deps.py: replace 3 DB round-trips with single JOIN query for
  token resolution; update last_used_at still separate (best-effort)
- navi/api/routes/api_tokens.py: replace asyncpg-specific "UPDATE 1"
  string check with RETURNING id fetchrow; increase token_prefix from
  8 to 12 chars for better visual identification; add security notes
- tests/unit/auth/test_api_tokens.py: update tests for JOIN query and
  RETURNING-based revoke

Frontend:
- webclient/src/components/settings/ShowTokenModal.vue: new modal that
  shows the plain token in a readonly field with copy button and
  explicit warning — replaces the transient toast notification
- webclient/src/components/settings/ApiKeysPanel.vue: use ShowTokenModal
- webclient/src/composables/useWebSocket.js: add security comment about
  localStorage XSS risk and query param log exposure

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add API token auth system for headless/micro clients ...

Backend:
- navi/auth/_ddl.py: add api_tokens table with boot-time migration
- navi/auth/deps.py: _resolve_user now falls back to X-Api-Token header
  and ?api_token query param for WebSocket auth
- navi/auth/__init__.py: add ApiToken pydantic model
- navi/api/routes/api_tokens.py: CRUD endpoints (POST/GET/DELETE)
- navi/main.py: wire api_tokens router

Frontend:
- webclient/src/App.vue: add #settings hash routing
- webclient/src/components/settings/: SettingsView, ApiKeysPanel,
  CreateKeyModal with copy-to-clipboard flow
- webclient/src/api/index.js: token CRUD API functions
- webclient/src/stores/apiTokens.js: Pinia store
- webclient/src/components/sidebar/AppSidebar.vue: settings link
- webclient/src/composables/useWebSocket.js: append ?api_token= when
  localStorage token is present

Tests:
- tests/unit/auth/test_api_tokens.py: 10 unit tests covering token
  resolution (header + query param), revoke, missing/revoked tokens,
  orphan users, and CRUD endpoints

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Fix recall race, ContextVar leaks, dead code, and recall duplication ...

- run_recall: wrap busy check + create_run in session_lock to prevent
  race between scheduler and websocket handler
- run_recall: save ContextVar tokens and reset in finally to avoid
  leaking user context into subsequent background tasks
- websocket.py: reset user ContextVars in finally after run completes
- orchestrator.py: remove dead set_notify / _notify abstraction
- orchestrator.py: extract _finalize_recall to deduplicate success /
  MaxIterationsReached / Exception finalization blocks

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Unify in-memory session state in AgentSessionOrchestrator ...

Replace scattered _runs + _busy_sessions + _session_sockets with a
single _sessions: dict[str, SessionState] on the orchestrator.

- SessionState dataclass holds run, busy_event, and websockets
- _session_sockets module-level global removed from websocket.py;
  socket tracking moved into orchestrator (add/remove_websocket)
- Event bus subscriber _on_recall_update moved into orchestrator
- Per-session asyncio.Lock added to protect concurrent-run guard
- _cleanup() auto-removes empty SessionState entries

Tests updated to reference _sessions instead of legacy _runs.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Migrate MCP tool naming from mcp:server:tool to mcp__server__tool ...

The colon separator (mcp:server:tool) confuses many LLMs during
tool-calling because colons appear in schemas and URLs. Switch to
double-underscore separator (mcp__server__tool) for robust parsing.

Key changes:
- navi/mcp/tools.py: add build_mcp_name(), parse_mcp_name(), is_mcp_tool()
- navi/core/tool_executor.py: update _resolve_tool() with new helpers
  and legacy colon fallback for old sessions
- navi/core/tool_utils.py, subagent_runner.py: use build_mcp_name()
- navi/api/routes/{admin,agents}.py: prefix via build_mcp_name()
- navi/tools/{list_tools,reload_tools}.py: migrated
- All profile configs + system_prompt.txt: replace mcp: with mcp__
- manuals/{model_3d,lint_scad,render_3d,spawn_agent}.md: updated
- mcp_servers.d/gnexus-book.json: instructions updated
- docs/{api,profiles,tools,mechanics,visual.html}: updated
- tests: test_tool_executor.py and test_mcp.py aligned

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Extract WebSocket business logic into AgentSessionOrchestrator ...

- Create navi/core/orchestrator.py with AgentSessionOrchestrator and SessionRun
- Orchestrator owns _runs, _busy_sessions, Agent creation, run_agent(), run_recall()
- Transport-agnostic: accepts notify callback from WebSocket handler
- WebSocket handler (websocket.py) now only does serialization/deserialization
- _fire_recall delegates to orchestrator.run_recall() instead of inline logic
- recall_scheduler_loop now accepts orchestrator parameter
- AppContainer gains .orchestrator field, created in create_container()
- deps.py: add get_orchestrator()
- Update integration tests for scheduler_loop and websocket unit tests

All 392 tests pass.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Replace global lazy singletons with explicit AppContainer + lifespan ...

- Create navi/core/container.py with AppContainer dataclass and create_container()
- Rewrite navi/api/deps.py: remove module-level singletons, add _container global
  fallback + set_container(), use _resolve_container() for all getters
- Replace @app.on_event with @asynccontextmanager lifespan in main.py
- Update routes to use Depends(get_scheduler) instead of calling get_scheduler()
- Fix FastAPI body parsing bug: remove dataclass parameters from Depends getters
  (FastAPI was treating AppContainer sub-dependencies as Body params, forcing
  embed=True on all endpoint body params and causing 422 errors)
- Update websocket.py to use _resolve_container() instead of get_registries()
- Update integration test fixtures to build AppContainer and call set_container()
- Remove obsolete tests/unit/test_startup.py (tests removed _on_startup)
- Fix test_scheduler_loop.py fixture (get_registries no longer exists)

All 387 tests pass (excluding websocket hang tests).

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Enhance native toolset and add persistent KV store ...

- Add PostgreSQL-backed KvStore (navi/store/) for session-scoped data.
- Migrate todo and scratchpad from in-memory dicts to KvStore.
- Filesystem: add copy, grep, diff actions; compress description.
- CodeExec: remove language param, expose working_dir in schema.
- ImageView: resize to 1024px JPEG + Content-Type guard for URLs.
- Memory list: return distinct categories instead of all facts.
- SSH: add scp action with upload/download support.
- Update CLAUDE.md (Postgres-only), docs/tools.md, add docs/store.md.
- Fix agent/planning/context_builder async signatures for todo helpers.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

fix(recall): stabilize scheduled callback system and improve UX ...

Backend fixes:
- stop_session now stops headless recall runs via _busy_sessions dict
- _fire_recall sets user ContextVars so tools work correctly
- MaxIterationsReached treated as success, not failure
- skip_next_recall uses GREATEST(trigger_at, now) for overdue recalls
- schedule_recall rejects past trigger times
- timezone offset double-adjustment fixed for aware datetimes
- _fire_recall registers _AgentRun for reconnect/replay support
- session_sync race with stream_start fixed

Frontend improvements:
- Recall banner moved to ChatHeader with live Cancel/Skip buttons
- Recall messages styled with is_recall flag and badge
- Real-time recall updates via WebSocket (recall_update events)
- Recall filter moved to sessions-header as toggle button
- Session list shows clock icon for sessions with pending recall
- Empty state messages for empty/filtered session lists
- Fixed missing api import in ChatHeader.vue

Tests:
- Updated scheduler_loop tests for _busy_sessions dict change

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Refactor: move tool helper modules into _internal subpackage ...

Moves non-tool infrastructure out of navi/tools/ root so that only
actual tool classes live there:

  base.py           → _internal/base.py
  loader.py         → _internal/loader.py
  middleware.py     → _internal/middleware.py
  logging_middleware.py → _internal/logging_middleware.py
  _time_parser.py   → _internal/time_parser.py

All imports updated across core/, api/, mcp/, tools/, and tests/.
No proxy files remain in navi/tools/ root.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add self-recall (scheduled callback) system ...

Core features:
- schedule_recall tool: once/recurring/immediate callbacks
- manage_recall tool: cancel/skip/list scheduled recalls
- Natural-language time parser (ISO, relative, "tomorrow at 09:00")
- PostgreSQL-backed RecallScheduler with lazy pool init
- Background recall_scheduler_loop with asyncio.Semaphore(3)
- _busy_sessions guard prevents user messages during headless runs
- Agent.run() preserves thinking field for session history visibility
- API endpoints: GET/DELETE/POST for session recall, admin list
- Frontend: recall badge, filter, cancel/skip in sidebar and chat header
- Tests: parser, scheduler CRUD, tools, API, scheduler loop (53 tests)
- Manuals: schedule_recall.md and manage_recall.md

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

feat: admin API endpoints for individual MCP server CRUD ...

Add granular REST endpoints for managing single MCP servers:
- GET  /admin/mcp/config/{server_name}
- PUT  /admin/mcp/config/{server_name}
- DELETE /admin/mcp/config/{server_name}

Bulk endpoints remain for backward compatibility.

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add session search across messages with backend + frontend ...

Backend:
- GET /sessions now accepts `search` query param
- _session_summary computes match_indices and match_preview from messages
- pg_session_store: messages ILIKE added to search_list and count_all
- In-memory store: search_list also filters by message content

Frontend:
- AppSidebar: search toggle icon + debounced input, Ctrl+K shortcut
- SessionItem: highlight matching text, show match_preview from search
- SessionList: pass searchQuery to SessionItem
- SessionsStore: searchQuery/searchActive state, setSearch/clearSearch
- API layer: getSessions accepts search param
- MessageList: scroll to target message + brightness flash animation
- ChatStore: loadSession accepts targetMessageIndex, scrollToMessageIndex ref
- CSS: msg-flash keyframe animation in app.scss
- Tests updated for new getSessions signature

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Persist uploaded files in messages, live file tree updates, and UI polish ...

Backend:
- Add `files` field to `Message` model so uploaded file metadata survives page refresh
- Pass `files` through websocket handler → `agent.run_stream` / `agent.run`
- `list_tools`: make `profile_id` required; return error instead of all-tools fallback

Webclient:
- Call `fetchFiles()` after successful file upload for immediate Files tab update
- Live refresh file tree on filesystem (write/edit/append/mkdir/rm/cp/mv), terminal, and code_exec tool calls
- Add manual refresh button (desktop) and pull-to-refresh (mobile) to Files tab
- Fix live link updates: move regex creation inside per-message loop to avoid lastIndex state leak
- Restore full profile name text next to avatar in ChatHeader; hide avatar in header
- Fix mobile ArtifactsPanel: collapse tab text labels so close button fits with 3 tabs

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add session file directory listing endpoint and Files tab in ArtifactsPanel ...

Backend:
- New GET /sessions/{session_id}/files endpoint (recursive, max depth 10)
- Includes hidden files, returns {path, size, is_dir, modified_at}
- Path traversal protection via resolve() + relative_to(base)
- list_session_files() helper in session_files.py

Webclient:
- Third "Files" tab in ArtifactsPanel alongside Artifacts and Links
- Tree display with depth-based indentation
- File type icons by extension (image, video, code, etc.)
- Download and inline-open actions per file
- Fetch on session load/reload via chatStore.fetchFiles()

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>

Add MCP admin endpoints for config, reconnect, status, test, and profile group management ...

Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>