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feat(mcp): mcp-server-properly-built audit — 11 atomic commits closing 13 audit findings - #512

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feat/mcp-server-properly-built
May 9, 2026
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feat(mcp): mcp-server-properly-built audit — 11 atomic commits closing 13 audit findings#512
robotrocketscience merged 15 commits into
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feat/mcp-server-properly-built

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@robotrocketscience robotrocketscience commented May 9, 2026

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Summary

Audit of src/aelfrice/mcp_server.py against the mcp-builder skill. Closes both critical findings, all six major findings, and five of eight minor findings; four minors deferred (issues to follow).

11 atomic commits + 2 gate commits. 76 MCP tests (40 prior + 36 new).

Audit findings closed

Severity Finding Closed by
CRITICAL Server unstartable (no entry point) Phase 1 C1
CRITICAL Tools have empty descriptions Phase 1 C2
MAJOR No tool annotations Phase 2 M1
MAJOR No Pydantic input validation Phase 3 I1
MAJOR No server instructions= overview Phase 2 M2
MAJOR No README/docs MCP setup section Phase 1 C3
MAJOR Registration layer untested Phase 4
MAJOR tool_lock hard assert Phase 2 M4
MINOR No response_format enum Phase 3 I2
MINOR No pagination on aelf_locked Phase 3 I3
MINOR Stale "9 vs 12 tools" comment Phase 2 M3

Behavior changes worth flagging

  • tool_locked return shape: ADDED keys total / has_more / next_offset. Existing keys (kind / n / locked) preserved. Callers that consumed n as "total locks across all locks" should switch to total.
  • tool_locked paginates by default: returns first 50, not all. Tests on stores with <50 locks behave identically.
  • tool_lock returns structured lock.error dict (with error field) instead of raising AssertionError on empty derivation.
  • New aelf mcp subcommand + python -m aelfrice.mcp_server entry point (server was previously unstartable).
  • Read tools accept response_format="markdown" for human-display flow. JSON is the default; existing callers unaffected.

Deferred (follow-up issues to file)

  • Server name aelfrice vs convention aelfrice_mcp
  • Sync handlers (no async def) — defensible for SQLite, revisit if async I/O dep lands
  • Polymorphic tool_onboard (3 input shapes in one tool) — design call, re-evaluate after host telemetry
  • Untyped _FastMCP: Any cast — pragmatic until fastmcp ships type stubs

Test plan

  • Pure-handler tests pass (tests/test_mcp_server.py, 50+ tests)
  • CLI subcommand tests pass (tests/test_cli_mcp.py, 8 tests)
  • Lock-via-worker tests pass (tests/test_mcp_lock_via_worker.py, 6 tests including new error-path coverage)
  • Wrapper-layer tests pass (tests/test_mcp_wrapper_layer.py, 10 tests — static AST guards + fastmcp shim)
  • aelf --help shows mcp subcommand
  • aelf mcp (no [mcp] extra) exits 1 with actionable stderr
  • AST static guards: docstrings, annotations, instructions=, store lifetime, no print() to stdout
  • Discretion grep clean against main

Summary by Sourcery

Add a fully startable MCP server with documented tool surface, richer responses, and CLI entrypoint, while tightening validation, annotations, and tests around MCP integration.

New Features:

  • Expose MCP tools via a new aelf mcp CLI subcommand and python -m aelfrice.mcp_server module entry point.
  • Add optional markdown response formatting for read-only MCP tools so hosts can display human-friendly summaries.
  • Introduce pagination and total-count metadata for listing locked beliefs in the MCP API.

Bug Fixes:

  • Return a structured lock.error response from the lock tool when belief derivation fails instead of crashing with an assertion error.

Enhancements:

  • Define server-level instructions and per-tool annotations/docstrings so MCP hosts receive richer metadata and behavioral hints.
  • Add Pydantic-based input validation and shared typed aliases for MCP tool parameters, improving robustness and schema clarity.
  • Tighten stdout discipline and resource-lifetime guarantees for MCP handlers via static guards and wrapper-layer tests.

Documentation:

  • Update MCP and CLI command documentation with installation, host configuration, and usage details for the MCP server and new mcp subcommand.

Tests:

  • Expand MCP server tests with pagination, markdown response, and error-path coverage, plus new suites for the CLI mcp subcommand and the MCP wrapper/registration layer.

Summary by CodeRabbit

Release Notes

  • New Features

    • Added aelf mcp CLI subcommand to run the FastMCP stdio server
    • MCP server now exposes 6 additional tools (unlock, promote, feedback, confirm, stats, health)
    • MCP tools now support Markdown response format alongside JSON
    • Implemented pagination (limit/offset) for locked items queries with metadata
  • Documentation

    • Updated CLI reference: upgrade-cmd is now the primary upgrade command; upgrade marked as deprecated
    • Expanded MCP setup and usage documentation with multiple startup methods and error guidance

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sourcery-ai Bot commented May 9, 2026

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Reviewer's Guide

Refactors the MCP server to be a fully-typed, documented FastMCP server with pagination and response-format options, adds a CLI aelf mcp entry point and module __main__ guard, and introduces a comprehensive test suite and docs updates around MCP behavior and setup.

Sequence diagram for aelf mcp CLI start and FastMCP server behavior

sequenceDiagram
  actor User
  participant CLI as aelf_CLI
  participant MCP as _cmd_mcp
  participant Module as aelfrice.mcp_server
  participant Serve as serve
  participant FastMCP as FastMCP_runtime
  participant Host as MCP_host

  User->>CLI: run `aelf mcp`
  CLI->>MCP: dispatch to _cmd_mcp(args, out)

  MCP->>Module: import serve
  alt import fails (aelfrice not importable)
    Module-->>MCP: ImportError
    MCP->>User: print error to stderr
    MCP-->>CLI: return status 1
  else import ok
    MCP->>Serve: call serve()

    alt fastmcp missing
      Serve-->>MCP: raise RuntimeError("fastmcp is not installed ...")
      MCP->>User: print error with install hint to stderr
      MCP-->>CLI: return status 1
    else fastmcp available
      Serve->>FastMCP: construct server(name="aelfrice", instructions=_SERVER_INSTRUCTIONS)
      Serve->>FastMCP: register tools (aelf_search, aelf_lock, ...)
      FastMCP-->>Serve: ready

      FastMCP-->>Host: JSON-RPC over stdio
      loop for each tool call
        Host->>FastMCP: call tool (e.g. aelf_locked)
        FastMCP->>Module: invoke wrapper
        Module->>Module: open MemoryStore
        Module->>Module: run pure handler
        Module-->>FastMCP: dict response (json or markdown-wrapped)
        FastMCP-->>Host: tool response
      end

      alt user sends SIGINT
        Host-->>FastMCP: SIGINT / pipe close
        FastMCP-->>Serve: stop
        Serve-->>MCP: return
        MCP-->>CLI: return status 0
      end
    end
  end
Loading

Class diagram for MCP server tool wrappers, shared types, and response formatting

classDiagram
  class MemoryStore {
  }

  class AelfToolHandlers {
    +tool_search(store: MemoryStore, query: str, budget: int, response_format: str) dict
    +tool_lock(store: MemoryStore, statement: str) dict
    +tool_locked(store: MemoryStore, pressured: bool, limit: int, offset: int, response_format: str) dict
    +tool_demote(store: MemoryStore, belief_id: str) dict
    +tool_validate(store: MemoryStore, belief_id: str, source: str) dict
    +tool_unlock(store: MemoryStore, belief_id: str) dict
    +tool_promote(store: MemoryStore, belief_id: str, source: str) dict
    +tool_feedback(store: MemoryStore, belief_id: str, signal: str, source: str) dict
    +tool_confirm(store: MemoryStore, belief_id: str, source: str, note: str) dict
    +tool_stats(store: MemoryStore, response_format: str) dict
    +tool_health(store: MemoryStore, response_format: str) dict
  }

  class ResponseFormattingHelpers {
    <<utility>>
    +_wrap_markdown(json_payload: dict~str, Any~, text: str) dict~str, Any~
    +_render_search_markdown(payload: dict~str, Any~) str
    +_render_locked_markdown(payload: dict~str, Any~) str
    +_render_stats_markdown(payload: dict~str, Any~) str
    +_render_health_markdown(payload: dict~str, Any~) str
    +_RESPONSE_FORMAT_JSON: str
    +_RESPONSE_FORMAT_MARKDOWN: str
    +_RESPONSE_FORMATS: frozenset~str~
  }

  class LockedPagingConfig {
    <<value object>>
    +_LOCKED_DEFAULT_LIMIT: int
    +_LOCKED_MAX_LIMIT: int
  }

  class PydanticTypes {
    <<type aliases>>
    +_BeliefId: Annotated~str, Field~
    +_SourceLabel: Annotated~str, Field~
    +_ResponseFormat: Annotated~str, Field~
  }

  class FastMCPServer {
    <<MCP server wrapper>>
    +serve() void
    +_open_default_store() MemoryStore
    +_SERVER_INSTRUCTIONS: str
  }

  class MCPToolsAPI {
    <<FastMCP tool wrappers>>
    +aelf_onboard(path: str|None, session_id: str|None, classifications: list~dict~str, Any~~|None) dict
    +aelf_search(query: str, budget: int, response_format: str) dict
    +aelf_lock(statement: str) dict
    +aelf_locked(pressured: bool, limit: int, offset: int, response_format: str) dict
    +aelf_demote(belief_id: str) dict
    +aelf_validate(belief_id: str, source: str) dict
    +aelf_unlock(belief_id: str) dict
    +aelf_promote(belief_id: str, source: str) dict
    +aelf_feedback(belief_id: str, signal: str, source: str) dict
    +aelf_confirm(belief_id: str, source: str, note: str) dict
    +aelf_stats(response_format: str) dict
    +aelf_health(response_format: str) dict
  }

  FastMCPServer --> MCPToolsAPI : registers tools via decorators
  FastMCPServer --> AelfToolHandlers : calls pure handlers
  AelfToolHandlers --> MemoryStore : uses
  AelfToolHandlers --> ResponseFormattingHelpers : uses for markdown
  MCPToolsAPI --> FastMCPServer : uses _open_default_store
  MCPToolsAPI --> AelfToolHandlers : delegates to pure handlers
  MCPToolsAPI --> PydanticTypes : parameter types and validation
  AelfToolHandlers --> LockedPagingConfig : uses for limit/offset bounds
  ResponseFormattingHelpers --> LockedPagingConfig : uses pagination metadata
Loading

File-Level Changes

Change Details Files
Introduce server-level instructions, response-format handling (JSON/markdown), and pagination for locked beliefs in the MCP pure handlers.
  • Add _SERVER_INSTRUCTIONS string used as FastMCP server instructions at registration time.
  • Add response_format parameter and markdown rendering/wrapping helpers for search, locked, stats, and health handlers while keeping JSON as default.
  • Extend tool_locked with limit/offset pagination, total/has_more/next_offset metadata, and clamping of limit/offset values.
  • Change tool_lock to return a structured lock.error payload instead of asserting when derivation yields no belief.
src/aelfrice/mcp_server.py
tests/test_mcp_server.py
tests/test_mcp_lock_via_worker.py
Wrap pure handlers with annotated FastMCP tools using Pydantic-based schemas and behavioral hints, and enforce these via static/AST tests and a fastmcp shim.
  • Lazy-import pydantic.Field inside serve() and define annotated helper types for belief IDs, source labels, and response_format.
  • Construct FastMCP with name and instructions, then define aelf_* wrapper tools that delegate to tool_* handlers and manage store lifetime.
  • Add detailed docstrings and annotations metadata (title + readOnly/destructive/idempotent/openWorld hints) for all aelf_* tools.
  • Add tests that use AST inspection and a fake fastmcp module to verify wrapper-to-handler wiring, annotations presence, docstrings, and server instructions.
src/aelfrice/mcp_server.py
tests/test_mcp_wrapper_layer.py
tests/test_cli_mcp.py
tests/test_mcp_server.py
Add CLI aelf mcp subcommand and module entry point to start the FastMCP stdio server, plus documentation updates for MCP usage and CLI commands.
  • Implement _cmd_mcp subcommand that imports aelfrice.mcp_server.serve, runs it, and handles missing fastmcp and KeyboardInterrupt with clean exit codes and stderr messaging.
  • Register the mcp subcommand in the CLI parser with help text mentioning the [mcp] extra and ensure it appears in --help output.
  • Add main guard in mcp_server.py so python -m aelfrice.mcp_server invokes serve() as a module entry point.
  • Update MCP.md and COMMANDS.md docs to describe installation with the [mcp] extra, the aelf mcp entry point, and revised lifecycle command naming.
  • Add tests around CLI wiring, error messaging when fastmcp is missing, help text, and module main-guard/importability.
src/aelfrice/cli.py
src/aelfrice/mcp_server.py
docs/MCP.md
docs/COMMANDS.md
tests/test_cli_mcp.py

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Pull request was closed or merged during review

📝 Walkthrough

Walkthrough

This PR integrates FastMCP server support into aelfrice, adding a new aelf mcp CLI command that exposes 12 tools over stdio. It updates tool signatures to support response formatting (JSON/Markdown) and cursor pagination, introduces a pydantic dependency, documents the new command, and provides comprehensive test coverage including AST-based guards.

Changes

MCP Integration and Tool Enhancement

Layer / File(s) Summary
Dependencies & Documentation
pyproject.toml, docs/COMMANDS.md, docs/MCP.md
Adds pydantic>=2 to optional mcp extra; updates CLI docs for upgrade-cmd command and MCP startup via aelf mcp or python -m aelfrice.mcp_server.
MCP Server Types & Instructions
src/aelfrice/mcp_server.py
Adds Annotated type import and _SERVER_INSTRUCTIONS string defining tool groups and operating constraints for FastMCP registration.
Response Formatting Infrastructure
src/aelfrice/mcp_server.py
Introduces response-format constants and Markdown wrapper/renderer helpers for search, locked, stats, and health outputs.
Tool Implementations
src/aelfrice/mcp_server.py
Updates tool_search, tool_locked, tool_stats, tool_health to accept response_format parameter; adds pagination (limit/offset) to tool_locked; changes tool_lock to return structured lock.error payload when derivation yields no belief.
Serve Refactoring & Registration
src/aelfrice/mcp_server.py
Refactors serve() to lazily import pydantic.Field, define reusable Annotated constraints, register 12 tools with parameter schemas/metadata, and adds __main__ entrypoint.
CLI Command Wiring
src/aelfrice/cli.py
Adds _cmd_mcp handler invoking aelfrice.mcp_server.serve() with actionable stderr hints on import/runtime failures; registers mcp subcommand in argument parser.
CLI MCP Tests
tests/test_cli_mcp.py
Verifies mcp subcommand registration, error handling when fastmcp missing, module __main__ guard, help text, and AST-based guards for serve instructions and tool annotations.
Server Functionality Tests
tests/test_mcp_server.py, tests/test_mcp_lock_via_worker.py
Tests pagination clamping, response-format rendering (Markdown/JSON), markdown output for all format-aware tools, and structured lock.error payload.
Wrapper Layer & Integration Tests
tests/test_mcp_wrapper_layer.py, tests/test_slash_commands.py
AST-based verification of wrapper presence and store lifecycle; fastmcp shim fixture capturing runtime tool registration with 12-tool count and annotation validation; marks mcp as hidden subcommand.

Estimated code review effort

🎯 4 (Complex) | ⏱️ ~60 minutes

Possibly related PRs

  • robotrocketscience/aelfrice#352: Adds new CLI subcommand pattern by modifying parser and introducing handler functions similar to the _cmd_mcp handler.
  • robotrocketscience/aelfrice#395: Directly related; modifies the same MCP server and CLI to add/register tools (aelf_unlock, aelf_promote) covered in this PR.
🚥 Pre-merge checks | ✅ 4 | ❌ 1

❌ Failed checks (1 warning)

Check name Status Explanation Resolution
Docstring Coverage ⚠️ Warning Docstring coverage is 55.56% which is insufficient. The required threshold is 80.00%. Write docstrings for the functions missing them to satisfy the coverage threshold.
✅ Passed checks (4 passed)
Check name Status Explanation
Title check ✅ Passed The title accurately summarizes the main objective: an audit of the MCP server implementation that closes 13 findings across 11 atomic commits.
Description check ✅ Passed The description comprehensively covers summary, linked findings, behavior changes, test plan, deferred items, and verification details that align well with the template structure.
Linked Issues check ✅ Passed Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check ✅ Passed Check skipped because no linked issues were found for this pull request.

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Hey - I've found 1 issue

Prompt for AI Agents
Please address the comments from this code review:

## Individual Comments

### Comment 1
<location path="src/aelfrice/mcp_server.py" line_range="157-163" />
<code_context>
+    return "\n".join(lines).rstrip() + "\n"
+
+
+def _render_locked_markdown(payload: dict[str, Any]) -> str:
+    locked = payload.get("locked", [])
+    total = payload.get("total", payload.get("n", 0))
+    n = payload.get("n", 0)
+    offset = payload.get("offset", 0)
+    has_more = payload.get("has_more", False)
+    header = (
+        f"# Locked beliefs — page {offset // max(n, 1) + 1 if n else 1}, "
+        f"{n} of {total} shown"
</code_context>
<issue_to_address>
**issue:** Locked markdown page number is computed from the current page size, which breaks when the last page is partial.

Here `n` is the size of the current page, not the page size. On the last page, where `n < limit`, this makes the page index jump (e.g. total=120, limit=50 ⇒ pages: 50, 50, 20; last page uses offset=100, n=20 ⇒ `100 // 20 + 1 == 6`, not 3).

To keep page numbers stable, base the calculation on the actual page size (e.g. `limit` from the server) or on `total` and `offset` alone. For example, pass `page_size` in the payload and use that instead of `n`, or only use `offset // max(n or total, 1) + 1` when `n == limit` and fall back to something like `math.ceil(total / limit)` on the last page.
</issue_to_address>

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Comment on lines +157 to +163
def _render_locked_markdown(payload: dict[str, Any]) -> str:
locked = payload.get("locked", [])
total = payload.get("total", payload.get("n", 0))
n = payload.get("n", 0)
offset = payload.get("offset", 0)
has_more = payload.get("has_more", False)
header = (

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issue: Locked markdown page number is computed from the current page size, which breaks when the last page is partial.

Here n is the size of the current page, not the page size. On the last page, where n < limit, this makes the page index jump (e.g. total=120, limit=50 ⇒ pages: 50, 50, 20; last page uses offset=100, n=20 ⇒ 100 // 20 + 1 == 6, not 3).

To keep page numbers stable, base the calculation on the actual page size (e.g. limit from the server) or on total and offset alone. For example, pass page_size in the payload and use that instead of n, or only use offset // max(n or total, 1) + 1 when n == limit and fall back to something like math.ceil(total / limit) on the last page.

Comment thread tests/test_cli_mcp.py
"""
import aelfrice.mcp_server as mod

src = open(mod.__file__, "r", encoding="utf-8").read()
Comment thread tests/test_cli_mcp.py
import ast
import aelfrice.mcp_server as mod

src = open(mod.__file__, "r", encoding="utf-8").read()
Comment thread tests/test_cli_mcp.py
"openWorldHint",
}

src = open(mod.__file__, "r", encoding="utf-8").read()
Comment thread tests/test_cli_mcp.py
import ast
import aelfrice.mcp_server as mod

src = open(mod.__file__, "r", encoding="utf-8").read()
Comment thread tests/test_cli_mcp.py
"""
import aelfrice.mcp_server as mod

src = open(mod.__file__, "r", encoding="utf-8").read()
def _serve_function() -> ast.FunctionDef:
import aelfrice.mcp_server as mod

src = open(mod.__file__, "r", encoding="utf-8").read()

_RESPONSE_FORMAT_JSON: Final[str] = "json"
_RESPONSE_FORMAT_MARKDOWN: Final[str] = "markdown"
_RESPONSE_FORMATS: Final[frozenset[str]] = frozenset(


def _serve_function() -> ast.FunctionDef:
import aelfrice.mcp_server as mod
@robotrocketscience robotrocketscience added the author-rogue1 PR coordination mutex label May 9, 2026
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[claim:review:Toug:2026-05-09T06:04:35Z]

@github-actions github-actions Bot added the attn:merge-conflict PR branch needs rebase label May 9, 2026
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This PR is now behind main. Rebase locally so your commit signatures stay intact:

git fetch origin && git checkout 'feat/mcp-server-properly-built' && git rebase origin/main
# resolve conflicts if any, then
git push --force-with-lease

Auto-rebase was removed because the bot has no signing key; rebasing as the bot strips author signatures and the required_signatures rule on main then blocks the merge. See #341.

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Status: Changes requested — pytest (3.12) + deptry both failing

Two real CI failures need fixes before merge.

1. pytest (3.12)tests/test_slash_commands.py:146

The new aelf mcp subcommand was added to the CLI but not added to the test's EXPECTED ∪ HIDDEN set. The test enforces a closed-world list of CLI verbs.

Failing assertion:

cli subcommands [...'mcp'...] != EXPECTED ∪ HIDDEN [no 'mcp']

Fix: add 'mcp' to whichever of EXPECTED or HIDDEN (more likely HIDDEN, since aelf mcp is a server entrypoint not a user-facing slash) in tests/test_slash_commands.py. If it should also be a slash command, add a /aelf:mcp entry to the slash bundle; otherwise the HIDDEN-set is the right home.

2. deptrysrc/aelfrice/mcp_server.py:747

DEP001 'pydantic' imported but missing from the dependency definitions

pydantic is imported directly (used by feat(mcp): Pydantic Field constraints on every tool param via Annotated) but only present transitively via fastmcp. Direct import requires direct declaration.

Fix: add pydantic>=2 (match the version fastmcp already pins) to [project.dependencies] in pyproject.toml, and uv lock.

Other checks

  • Discretion grep against main — clean (the "Claude Code" hit is the host-product reference already present on main, and the explicit scrub commit e32279d is on the branch).
  • All 13 commits signed (G).
  • Other CI green: CodeQL (python + actions), pattern/secrets/history scans, vulture, typos, label, prefix checks, CodeRabbit, Sourcery.
  • pytest (3.13) was cancelled (preempted by a later push), but 3.12 is the authoritative failure.

Once both are fixed and CI is green I'll FF-merge.

@robotrocketscience robotrocketscience added attn:unblock Needs answer from another session and removed attn:review Needs review (PR open, awaiting reviewer) attn:merge-conflict PR branch needs rebase labels May 9, 2026
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[release:review:Toug:2026-05-09T06:05:51Z]

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robotrocketscience force-pushed the feat/mcp-server-properly-built branch from e32279d to e08b2b2 Compare May 9, 2026 06:10
@robotrocketscience robotrocketscience added attn:review Needs review (PR open, awaiting reviewer) and removed attn:unblock Needs answer from another session attn:review Needs review (PR open, awaiting reviewer) labels May 9, 2026
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Force-pushed e08b2b2 with both fixes from the review:

  1. test_slash_commands.py — added 'mcp' to HIDDEN_SUBCOMMANDS. Hidden (not visible-CLI) is the right home: aelf mcp is a server entrypoint hosts wire via MCP config, not a workflow verb. Comment in the diff explains the rationale. Local pytest (3.13): 110 passing.

  2. pyproject.toml — added pydantic>=2 to [project.optional-dependencies.mcp] alongside fastmcp. The pydantic import (from pydantic import Field) is lazy inside serve() and gated to fastmcp availability, so it only resolves when the [mcp] extra is requested — which is also when fastmcp pulls it transitively. Putting it in [mcp] keeps the default install lean (vs main [project.dependencies] which would force pydantic on every install). uv lock produced a clean 1-line metadata diff. Local uvx deptry src/: clean.

Also rebased onto current main (post-#511) as a single replay (15/15 clean, all signatures preserved). FF-mergeable.

Re-flagged attn:review.

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git fetch origin && git checkout 'feat/mcp-server-properly-built' && git rebase origin/main
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git push --force-with-lease

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[claim:review:Gylf:2026-05-09T06:19:14Z]

… server

The MCP server module shipped without an entry point. pyproject.toml
[project.scripts] exposed no aelf-mcp; cli.py had no `aelf mcp`
subcommand; mcp_server.py had no __main__ block. Hosts configuring an
MCP server entry had nothing to point at.

Adds:
- `aelf mcp` subcommand wired to a new _cmd_mcp handler that imports
  serve(), translates the [mcp]-extra-missing RuntimeError into an
  actionable stderr message + exit 1, and treats SIGINT as clean exit.
- `if __name__ == "__main__": serve()` guard in mcp_server.py so
  `python -m aelfrice.mcp_server` is a usable fallback.
- tests/test_cli_mcp.py covering: subcommand registration, --help
  visibility, missing-fastmcp error path, __main__ guard, module
  resolution, and a static guard against print()-to-stdout regressions
  (stdio MCP servers must keep stdout clean for JSON-RPC).

Phase 1 C1 of the mcp-server-properly-built audit (closes critical
gap: server is unstartable as shipped).
…uard

FastMCP reads the @mcp.tool-decorated function's docstring as the tool's
`description` field exposed to the host LLM. The wrappers in serve() had
none, so hosts got an empty description — tools were essentially
undiscoverable, even though the underlying tool_* pure handlers had
their own docstrings (which FastMCP never sees).

Each wrapper now has:
- one-line summary of purpose
- read-only / mutating posture stated in prose
- Args with examples + constraint hints
- Returns with the discriminating `kind` enum and full payload schema

Adds tests/test_cli_mcp.py::test_every_decorated_aelf_tool_has_a_docstring
as a static regression guard: parses mcp_server.py with `ast`, finds all
@mcp.tool decorators inside serve(), asserts each decorated fn has a
non-empty docstring. Catches future tool additions that forget the
description.

Phase 1 C2 of the mcp-server-properly-built audit.
…e refs

docs/MCP.md previously documented two non-existent invocation paths:
  - `aelf-mcp` console script (never wired in pyproject [project.scripts])
  - `python -m aelfrice.mcp_server.serve` (invalid — `python -m` runs a
    module's __main__, not a function)

Replaces with the two paths actually shipped in feat/mcp-server-properly-built:
  - `aelf mcp` (CLI subcommand)
  - `python -m aelfrice.mcp_server` (now resolvable via the new __main__ guard)

Updated host-config example to use `command: "aelf", args: ["mcp"]` for
end-user installs; kept the `uv run --project` form as a source-checkout
variant.

docs/COMMANDS.md: adds a `mcp` row to the lifecycle table and renames the
`upgrade` row to `upgrade-cmd` to match the post-#427 canonical name (the
deprecated alias note is preserved).

Phase 1 C3 of the mcp-server-properly-built audit. Server is now both
startable AND documented.
This gate closes phase 1 of the mcp-server-properly-built audit. Three
atomic commits on this branch resolve the two CRITICAL findings (server
unstartable as shipped; tools have empty descriptions) and add docs for
the new entrypoint.

Commits in scope:
  9adca85 feat(mcp): add `aelf mcp` subcommand + python -m fallback
  904bfb0 feat(mcp): docstrings on all 12 @mcp.tool wrappers + AST guard
  455eaac docs(mcp): document `aelf mcp` entrypoint + fix stale refs

Verification:
- pytest tests/test_cli_mcp.py tests/test_mcp_server.py: 48 passed (40 prior + 8 new)
- aelf --help: 'mcp' subcommand appears in subcommand list with help string
- aelf mcp (no [mcp] extra): exits 1, stderr "error: fastmcp is not installed"
- AST static guard test_every_decorated_aelf_tool_has_a_docstring: passes
- AST static guard test_mcp_handlers_never_print_to_stdout: passes
- python -m aelfrice.mcp_server: importlib resolves the module
- docs/MCP.md: install/run section now matches shipped behavior
- docs/COMMANDS.md: lifecycle table includes mcp row, upgrade-cmd canonical

Blockers (require user decision before next phase):
- [user] Greenlight phase 2 (annotations + instructions= + tool_lock
  assert fix + stale-docstring fix) on this same branch?
- [user] Phase 1 alone is mergeable as-is — server works for the first
  time. Open PR now or wait for phases 2-4 to land first?
- [user] Re-run `uv tool upgrade aelfrice` on your local install? Phase 1
  has no impact until installed; you're still on v1.6.0.

Open questions: (none)

Rollback:
- git revert 455eaac 904bfb0 9adca85   # in this order; rolls phase 1 back to a40d546
…potent/openWorld hints

MCP hosts use tool annotations to gate dangerous operations (e.g. require
human approval for destructiveHint=True tools, or auto-allow read-only
ones). Without annotations, fastmcp's defaults are destructiveHint=True
+ openWorldHint=True per spec — the worst-of-both-worlds default that
forces approval prompts on read-only tools and discloses no constraint
on actually-destructive ones.

Annotation matrix (all openWorldHint=False — local SQLite, no network):

  Tool             read   destr   idem
  aelf_search      Y      N       Y       (FTS5 lookup)
  aelf_locked      Y      N       Y       (list)
  aelf_stats       Y      N       Y       (counts)
  aelf_health      Y      N       Y       (regime classifier)
  aelf_lock        N      N       Y       (re-lock = upgrade, content-addressed)
  aelf_validate    N      N       Y       (origin promotion; already_validated no-op)
  aelf_unlock      N      N       Y       (lock clear; already_unlocked no-op)
  aelf_promote     N      N       Y       (alias of validate)
  aelf_demote      N      Y       N       (drops a tier; only mutating tool tagged destructive)
  aelf_feedback    N      N       N       (Beta posterior shifts each call)
  aelf_confirm     N      N       N       (Beta posterior shifts each call)
  aelf_onboard     N      N       N       (start/accept/status — worst-case posture)

Adds tests/test_cli_mcp.py::test_every_decorated_aelf_tool_has_annotations
as a static AST guard: every @mcp.tool() must pass an `annotations={...}`
dict containing all four required hint keys. Catches future tool
additions that forget to annotate.

Phase 2 M1 of the mcp-server-properly-built audit.
…mment

Adds a module-level _SERVER_INSTRUCTIONS constant and passes it to the
FastMCP(...) constructor. Hosts that surface the instructions field
(Claude Desktop, recent fastmcp clients) now receive a server-level
overview at registration time grouping tools by READ / WRITE / TIER
posture and naming the local-only network constraint.

The overview is concise on purpose: hosts treat instructions as a hint,
not a manual; per-tool docstrings (added in 904bfb0) carry detail.

Also fixes the stale module docstring claim "exposing the 9 user-visible
tools" — actual count is 12 (onboard, search, lock, locked, demote,
validate, unlock, promote, feedback, confirm, stats, health). Adds
unlock + promote rows to the surface table (they were missing entirely).

Adds tests/test_cli_mcp.py::test_server_passes_instructions_to_fastmcp
as a static AST guard on the constructor call + a sanity check that
_SERVER_INSTRUCTIONS is non-trivial (>100 chars stripped).

Phase 2 M2 + M3 of the mcp-server-properly-built audit.
…r on empty derivation

`tool_lock` had `assert derived.belief is not None` directly on the hot
path. When the classifier sets persist=False (empty input post-strip,
question-shaped statement, anything else the derivation worker rejects),
the assert fires and the MCP tool surface crashes with an unhandled
exception. A crashing tool is far worse host-UX than a kind-tagged error
the agent can read and act on.

Replaces with a structured return:

  {"kind": "lock.error", "id": "", "action": "error",
   "error": "derivation produced no belief from the supplied statement
             (likely empty after normalization)"}

Matches the existing lock.error shape used downstream (run_worker
reported empty derived_belief_ids list) and adds the populated `error`
field for actionability.

Adds tests/test_mcp_lock_via_worker.py::
test_lock_returns_structured_error_when_derivation_yields_no_belief —
monkeypatches `derive` to return DerivationOutput(belief=None,
skip_reason="empty") and asserts the new shape.

Phase 2 M4 of the mcp-server-properly-built audit. Closes the last
phase-2 finding (#9 in the audit list).
Tools previously took raw primitives (str, int, bool, dict). FastMCP's
auto-schema-from-typehints exposed those without descriptions, length
limits, or value patterns. The host LLM saw `aelf_lock(statement: str)`
with no hint about what 'statement' meant or how long it could be.

Adds `Annotated[type, Field(...)]` constraints to every wrapper param:
  - statement (lock):  min_length=1, max_length=2000
  - query (search):    min_length=1, max_length=500
  - budget (search):   ge=1, le=100_000
  - belief_id (six):   min_length=1, max_length=64 — shared _BeliefId alias
  - source (four):     max_length=128 — shared _SourceLabel alias
  - signal (feedback): pattern=r"^(used|harmful)$" (still validated at
                       runtime; pattern is a hint to the host LLM)
  - note (confirm):    max_length=2000
  - path (onboard):    max_length=4096
  - session_id:        max_length=128
  - pressured (locked): bool with description
  - classifications:   list[dict] with description

`pydantic.Field` is imported lazily inside serve() (after fastmcp is
confirmed present) so `aelfrice.mcp_server` stays importable without
the [mcp] extra — preserving the existing test_module_imports_without_
fastmcp invariant.

Field aliases (_BeliefId, _SourceLabel) are inline inside serve() for
the same reason: they reference the lazily-imported Field symbol.

Phase 3 I1 of the mcp-server-properly-built audit. Closes major audit
gap #4 (no Pydantic input validation).
Per MCP best-practices guidance: tools that list resources must respect
a limit param, return pagination metadata (has_more, next_offset,
total), and never load unbounded result sets. tool_locked previously
returned the entire locked-belief list with no bound — fine at today's
typical corpus size (<100 locks) but a latent footgun for power users
or future expansion.

Pure handler tool_locked now takes:
  - limit (default 50, clamped to [1, 500])
  - offset (default 0, clamped at zero on the low end)

Defensive clamping happens in the pure handler, not just the wrapper —
keeps tool_locked safe when called directly outside the FastMCP layer
(no Pydantic constraint enforcement there).

Return shape adds: total, offset (echoed), has_more, next_offset (None
when has_more is False). Existing keys (kind, n, locked) preserved.

Wrapper aelf_locked exposes the new params via Annotated[..., Field]
with descriptions matching the audit guidance.

4 new tests cover: default-page first/second-page round-trip, oversize
limit clamping to _LOCKED_MAX_LIMIT, negative offset clamping to zero.

Phase 3 I3 of the mcp-server-properly-built audit. Closes audit gap
#12 (tool_locked returns ALL locked beliefs with no pagination).
…ats/health)

Per MCP best-practices guidance: tools that return structured data
should support both JSON (machine-readable, default) and Markdown
(human-readable). For aelfrice's four read-only tools, the LLM in the
host loop natively reads JSON dicts; markdown is only useful when raw
tool output flows through to a human display surface.

Implements the markdown path with an always-dict return wrapper to
preserve the dict-only return type:
  {"kind": "<original.kind>.markdown",
   "format": "markdown",
   "text": "rendered string"}

Per-tool renderers (`_render_search_markdown`, `_render_locked_markdown`,
`_render_stats_markdown`, `_render_health_markdown`) live as
module-level helpers so they're testable without fastmcp installed.

The pure handlers tool_search / tool_locked / tool_stats / tool_health
gain a `response_format: str = "json"` kwarg; default behavior is
unchanged. Wrappers expose the param via a shared _ResponseFormat
Annotated alias with `pattern=r"^(json|markdown)$"` so hosts get a
clean validation error on unknown formats.

Defensive: pure handlers fall through to JSON for unrecognized format
strings rather than raising — covered by a regression test.

6 new tests cover: markdown wrapping for each of the 4 read tools,
JSON default unchanged, unknown format fall-through.

Phase 3 I2 of the mcp-server-properly-built audit. Closes audit minor
gap #11 (no JSON/Markdown response_format).
Closes the last audit major-gap: registration layer was untested. All
40 prior MCP tests targeted pure tool_* handlers; nothing exercised
the @mcp.tool-decorated aelf_* wrappers, so any regression in the
decorator-call shape, store lifetime, or annotation propagation would
have shipped silently.

Two test strategies in tests/test_mcp_wrapper_layer.py:

1. Static AST guards (work without fastmcp installed):
   - test_all_expected_wrappers_present: 12 aelf_* wrappers exist
   - test_each_wrapper_calls_its_matching_pure_handler: aelf_X delegates
     to tool_X (catches typos in delegation)
   - test_each_wrapper_opens_and_closes_store: try/finally store
     lifetime hygiene (catches leak refactors)

2. fastmcp shim (works against any stub interpreter):
   - Installs a minimal _FakeFastMCP into sys.modules['fastmcp']
   - Reloads aelfrice.mcp_server, calls serve()
   - Captures every @mcp.tool registration + decorator kwargs
   - Asserts: 12 tools registered, all have annotations, all four
     hint keys present, readOnlyHint set is exactly the 4 read tools,
     destructiveHint set is exactly {aelf_demote}, instructions= passed,
     name="aelfrice" passed.

The shim also stubs `pydantic` if absent in the dev env, since serve()
imports `pydantic.Field` lazily after the fastmcp import.

Phase 4 of the mcp-server-properly-built audit. 76 MCP tests now
cover the full surface (40 pure handlers + 8 cli/main + 28 wrapper +
markdown + pagination).
…dy for PR

Closes the mcp-builder audit of src/aelfrice/mcp_server.py started this
session. Resolves both CRITICAL findings, all six MAJOR findings, and
five of the eight MINOR findings. The deferred minors are documented
in this gate body for triage in follow-up issues.

## Commits in scope (10 atomic + 1 phase-1 gate before this)

  Phase 1 — server is startable and discoverable
    9adca85 feat(mcp): aelf mcp subcommand + python -m fallback
    904bfb0 feat(mcp): docstrings on all 12 wrappers + AST regression guard
    455eaac docs(mcp): document `aelf mcp` entrypoint + fix stale refs
    46df710 gate: phase 1

  Phase 2 — well-formed
    a7576ad feat(mcp): annotations on every @mcp.tool
    232d8ab feat(mcp): instructions= overview + 9-vs-12 stale comment fix
    5f21c29 fix(mcp): tool_lock structured error vs AssertionError

  Phase 3 — input/output discipline
    6c6bf6c feat(mcp): Pydantic Field constraints via Annotated
    174d245 feat(mcp): cursor pagination on tool_locked
    7f04675 feat(mcp): response_format=markdown on read tools

  Phase 4 — wrapper-layer testing
    0214c17 test(mcp): wrapper-layer tests via static AST + fastmcp shim

## Verification

- pytest 76/76 passing across MCP test files (40 prior + 36 new):
    test_mcp_server.py, test_mcp_lock_via_worker.py,
    test_mcp_wrapper_layer.py, test_cli_mcp.py
- aelf --help: 'mcp' subcommand visible with help string
- aelf mcp (no [mcp] extra): exits 1 with actionable stderr
- Static AST guards: docstrings, annotations, instructions=, store
  lifetime, no print()-to-stdout, all green
- fastmcp shim test: 12 tools register, all with full annotations,
  read-only / destructive sets match expected
- Discretion grep: clean (only mentions Claude Code/Desktop, both
  pre-existing on main as the intended MCP host targets)

## Audit findings closure

  CRITICAL  #1  Server unstartable  → CLOSED (Phase 1 C1)
  CRITICAL  #2  Empty tool descriptions  → CLOSED (Phase 1 C2)
  MAJOR     #3  No tool annotations  → CLOSED (Phase 2 M1)
  MAJOR     #4  No Pydantic input validation  → CLOSED (Phase 3 I1)
  MAJOR     #5  No server instructions=  → CLOSED (Phase 2 M2)
  MAJOR     #6  No README/docs MCP setup section  → CLOSED (Phase 1 C3)
  MAJOR     #7  Registration layer untested  → CLOSED (Phase 4)
  MAJOR     #8  tool_lock hard assert  → CLOSED (Phase 2 M4)
  MINOR    #11  No response_format enum  → CLOSED (Phase 3 I2)
  MINOR    #12  No pagination on aelf_locked  → CLOSED (Phase 3 I3)
  MINOR    #13  Stale 9-vs-12 tools comment  → CLOSED (Phase 2 M3)

## Deferred (file follow-up issues)

  MINOR    #1   Server name "aelfrice" vs convention "aelfrice_mcp"
                — backwards-compat break, not load-bearing. Defer.
  MINOR    #6   Sync handlers (no async def) — defensible for SQLite,
                revisit if/when an async I/O dep lands.
  MINOR    #14  Polymorphic tool_onboard (3 input shapes in one tool)
                — design call. Re-evaluate after host telemetry.
  MINOR    #15  Untyped fastmcp cast `_FastMCP: Any` — fastmcp lacks
                stubs upstream. Pragmatic; revisit when stubs ship.

## Behavior changes worth flagging in PR description

- `tool_locked` return shape: ADDED keys total/has_more/next_offset.
  Existing keys (kind/n/locked) preserved. Callers that consumed
  `n` as "total locks across all locks" should switch to `total`.
- `tool_locked` returns first 50 by default instead of all locks. Tests
  on stores with <50 locks behave identically.
- `tool_lock` returns lock.error dict (with `error` field) instead of
  raising AssertionError on empty derivation. Callers that grep for
  AssertionError need to update; callers that check `out["kind"]` are
  fine.

## Blockers (require user decision before next phase)

- [user] Open PR? Branch is local-only on `feat/mcp-server-properly-built`.
  Need a `git push -u github feat/mcp-server-properly-built` to land it,
  then `gh pr create`. Not done by this gate.
- [user] File the four deferred-minor follow-up issues now or after
  PR merge?
- [user] Resume parked feat/aelf-upgrade-imperative work next session?
  That branch has no commits but the worktree state is captured in the
  end-of-session handoff.

Open questions: (none)

Rollback:
- Whole branch: never merged → just delete `feat/mcp-server-properly-built`.
- Per-phase: `git revert <phase-commit-range>` (see commit list above).
The pre-push hook's banned-vocabulary list (~/projects/aelfrice/.git/
hooks/pre-push) flags any added line containing 'Claude Code' or other
host-product names — the policy treats even legitimate product
references in committed content as session-context leakage.

Two added lines on this branch tripped the check:
  - docs/MCP.md:28 host-config preamble that listed host products
    by name (the equivalent line on main also names 'Claude Code'
    but the hook only checks `+` lines, so unmodified ones pass)
  - src/aelfrice/cli.py:4388 docstring/comment naming host products
    as the audience

Scrubbed both:
  - docs/MCP.md: 'Host config — any MCP-capable host:' (was
    'Host config — Claude Code, Codex, Claude Desktop, any MCP-capable
    host:')
  - cli.py: 'MCP-capable hosts configuring a server entry can discover
    it' (was 'hosts (Claude Desktop / Claude Code) configuring an MCP
    entry can discover it')

Net cumulative diff (main..HEAD) no longer has any `+` line
containing banned vocab. Pre-push hook now passes.

Functionality and link semantics are unchanged — the host-product
names were prose context, not normative content.
mcp_server.py imports `from pydantic import Field` lazily inside
serve() (gated to fastmcp availability) for tool-parameter Annotated
constraints. Previously satisfied transitively via fastmcp; deptry's
static analysis flags the direct import as undeclared. Declared in
the existing [mcp] optional group so the default install stays lean
(pydantic only resolves when [mcp] is requested, alongside fastmcp
which already pulls it transitively).
@robotrocketscience
robotrocketscience force-pushed the feat/mcp-server-properly-built branch from e08b2b2 to 75f66af Compare May 9, 2026 06:20
@robotrocketscience robotrocketscience removed the attn:merge-conflict PR branch needs rebase label May 9, 2026
@robotrocketscience
robotrocketscience merged commit 75f66af into main May 9, 2026
27 of 28 checks passed
@robotrocketscience
robotrocketscience deleted the feat/mcp-server-properly-built branch May 9, 2026 06:23
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[release:review:Gylf:2026-05-09T06:23:11Z]

robotrocketscience added a commit that referenced this pull request May 9, 2026
…itecture

Three diagrams Sourcery generated against PRs #512 and #513 that map
the moving parts visually:

1. /aelf:upgrade orchestrator (sequence) → docs/SLASH_COMMANDS.md
   The four-step Bash orchestration: detect → execute → refresh slash
   bundle → clear banner cache.

2. detect_reachable_installs() running-venv suppression (flowchart) →
   docs/SLASH_COMMANDS.md
   Why uv-run no longer triggers a spurious "multiple aelfrice installs
   detected" warning.

3. aelf-mcp startup + tool dispatch (sequence) +
   wrapper/handler layering (class) → docs/MCP.md
   The CLI → serve() → FastMCP → wrapper → pure-handler call graph plus
   the response-format / pagination / pydantic-typed surface.

The MCP architecture diagram references symbols (`aelf mcp`,
`_SERVER_INSTRUCTIONS`, `_wrap_markdown`, `_LOCKED_*_LIMIT`, `_BeliefId`)
introduced by PR #512, which is in `attn:unblock` at time of writing.
The pre-existing handler/wrapper structure is on main today; the rest
becomes accurate when #512 lands.

Source attribution noted at the bottom of each diagram block.
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