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>

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>

Wire MCP manager into sub-agent (spawn_agent) so MCP tools are available to sub-agents ...

- SpawnAgentTool: add mcp_manager parameter and pass it to Agent
- main.py: patch _mcp_manager into spawn_agent after MCP connect

Fixes: tool 'mcp_gnexus-book_*' not found in sub-agent sessions.

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

Allow subagents to use selected profiles

Simplify 3D SCAD subagent prompt

Fix profile prompt inconsistencies

Route subagent planning events into spawn_agent card in the UI ...

Previously PlanningStatus/PlanReady had no is_subagent flag, so subagent
planning spinners and plan cards rendered as top-level Navi planning UI.

Backend:
- Add is_subagent field to PlanningStatus and PlanReady events
- _run_planning accepts is_subagent param, passes it through all yields
- run_ephemeral calls _run_planning with is_subagent=True
- websocket.py forwards is_subagent in planning_status and plan_ready messages

Frontend (chat.js):
- onPlanningStatus: if is_subagent, set planningLabel on the last spawn_agent
  card instead of msg.statusLabel
- onPlanReady: if is_subagent, push plan into spawn card steps and clear
  planningLabel; otherwise behave as before

Frontend (ToolCard.vue):
- Render subagent-planning-indicator (spinner + label) when planningLabel set
- Render plan cards inside subagent steps using the same plan-card pattern

Also includes leftover session changes: spawn_agent default 40 in description
and manual, updated manual content.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Remove context_transfer from all user-facing prompts — internal mechanism only ...

context_transfer is the scratchpad section name used internally by spawn_agent
to auto-inject parent state. Navi doesn't control it and doesn't need to know
about it. Removed from: persona, secretary, server_admin, spawn_agent description,
manual. Internal code (spawn_agent.py) still reads the section transparently.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Fix core subagent misuse: enforce 1 plan step = 1 spawn_agent call ...

Root cause: nowhere was it stated that each AGENT step in the plan
maps to a separate spawn_agent call. Navi was bundling all AGENT steps
into a single call, dumping the full plan on one subagent.

spawn_agent description:
- Lead with: "Delegate EXACTLY ONE step of your plan"
- Explicit: "3 AGENT steps = 3 spawn_agent calls"
- Remove "multi-step sub-task" wording that invited bundling
- briefing: clarify as static context only (credentials, paths, instructions)
  Dynamic findings from prior steps → context_transfer, not briefing

Planning Phase 2 prompt:
- Add AGENT scoping rules: each step = one focused unit, not "do everything"
- Add good/bad examples of AGENT step granularity
- Show multiple AGENT steps in the format example

Secretary & server_admin system prompts:
- Add explicit 1:1 rule with counter-example
- Show correct multi-agent execution pattern with code example
- Clarify briefing vs context_transfer boundary everywhere

Persona:
- "ONE PLAN STEP = ONE spawn_agent CALL" as first sentence in SUB-AGENTS
- Field descriptions tightened: briefing = static, context_transfer = dynamic

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Subagent system prompt rework: separate from parent, briefing as system context ...

run_ephemeral:
- Add briefing param (passed from spawn_agent, injected into system prompt)
- Subagent system prompt is now completely separate from parent's system_prompt:
    1. profile.subagent_system_prompt  (executor persona)
    2. custom_system_prompt            (role specialisation for this task)
    3. briefing                        (task context as system-level instruction)
  Fallback to profile.system_prompt only if subagent_system_prompt is not defined

spawn_agent:
- task → user message only (the goal)
- briefing → system prompt (credentials, context, instructions)
- system_prompt → role specialisation injected alongside briefing
- Removed old user-message composition (## Context / ## Task split)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Fix spawn_agent: restore briefing, fix status leakage, enable subagent planning ...

spawn_agent:
- Restore briefing param (task = goal, briefing = context — good separation)
- Add system_prompt as third param for role specialisation per task
- Remove [STATUS: ...] prefix that was leaking into Navi's responses and
  causing hallucination — replaced with natural-language headers that are
  less likely to be regurgitated verbatim
- completed → neutral header; limit_reached → explicit warning about incompleteness

Profiles:
- subagent_planning_enabled: false → true in all three profiles
  (planning is on by default, disable per-profile if needed)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Improve subagent system: isolated tools, custom prompts, context transfer, timeout ...

AgentProfile:
- New fields: subagent_tools, subagent_planning_enabled, subagent_system_prompt
- loader.py: loads subagent_tools/subagent_planning_enabled from config.json,
  reads optional subagent_system_prompt.txt per profile

Profiles:
- Each profile now has a dedicated subagent_tools list (focused subset, no admin tools)
- subagent_planning_enabled: false (configurable per profile)
- New subagent_system_prompt.txt per profile with executor-focused instructions

run_ephemeral:
- Uses profile.subagent_tools instead of enabled_tools
- Builds subagent context without persona or profiles block (focused executor)
- Injects subagent_system_prompt after profile.system_prompt
- Accepts context_transfer: priming exchange injected before task message
- Wall-clock timeout (default 5 min) checked per iteration
- Returns (result_text, completed: bool) instead of bare string
- Optionally runs planning phase if profile.subagent_planning_enabled

spawn_agent:
- Removed briefing param; task is now fully self-contained
- Added system_prompt param: custom injected prompt for this specific task
- Auto-reads parent scratchpad context_transfer section via get_section()
- Result prefixed with [STATUS: completed|limit_reached]
- Timeout 300s

scratchpad:
- Added get_section(session_id, section) helper for cross-session reads

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Terminal icon ⚡, subagent max_iterations 20→100 ...

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Major feature batch: visibility, planning, file uploads, streaming ...

- stream_complete(): streaming with tools for all LLM turns — thinking
  now streams as ThinkingDelta/ThinkingEnd in real-time during tool-
  selection turns, not just on the final response
- todo built-in tool: session-scoped plan manager (set/view/update/clear);
  persona + all profiles updated with mandatory planning instructions
- TurnThinking event: sub-agent thinking forwarded to parent sink as a
  collapsible block in the spawn_agent card
- File uploads: non-image files uploaded via XHR, shown as badges in
  message bubble; SVG treated as regular file (not base64 image)
- session_files: POST /sessions/{id}/files, TTL cleanup, forbidden exts
- WebSocket reconnect: _AgentRun broadcast pattern, re-attach mid-stream
- UI: favicon, sidebar logo, turn-thinking cards, subagent thinking blocks,
  token counter, draft persistence, file progress bar
- Removed AgentNote (content is always None alongside tool_calls)
- Ollama stream_complete: tool_calls captured from non-final chunk (done=False)

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

spawn_agent: fix model behavior — synthesis reminder + lower delegation threshold ...

- ToolResult.output now prefixed with explicit reminder that the user
  cannot see sub-agent output and the orchestrator must present findings
  in its own final response; reminder appears adjacent to the result so
  the model reads it in context
- spawn_agent description updated: lowers threshold from "3+" to "2+"
  tool calls, makes USER CANNOT SEE warning prominent, tightens wording
- persona.txt DELEGATION section: clearer rule (default to spawning for
  multi-step sub-tasks), explicit "never end turn after spawn results",
  removed abstract threshold in favour of concrete examples

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Add spawn_agent: sub-agent delegation with isolated context ...

- Agent.run_ephemeral() — runs a sub-agent loop without a persistent
  session; accepts exclude_tools to block recursion; logs start/complete
- session_store made Optional in Agent.__init__ (None for ephemeral runs)
- SpawnAgentTool (navi/tools/spawn_agent.py): spawns an isolated Agent
  for a focused task; resolves profile from parent session via ContextVar;
  blocks spawn_agent recursion via exclude_tools=["spawn_agent"]
- build_default_registries() accepts session_store param; registers
  SpawnAgentTool after BackendRegistry is built (patches _backend_registry)
- deps.py passes _session_store to build_default_registries
- All profiles: spawn_agent added to enabled_tools, max_iterations 10→30
- persona.txt: DELEGATION section — when/how to use spawn_agent

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>