documentdb-mcp 1.0.1

DocumentDB MCP Server & A2A Server. DocumentDB is a MongoDB compatible open source document database built on PostgreSQL.

Documentdb Mcp

CLI or API | MCP | Agent

Version: 1.0.1

Documentation — Installation, deployment, usage across the API, CLI, MCP, and agent interfaces, and guidance for provisioning the DocumentDB backing service are maintained in the official documentation.

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Overview

Documentdb Mcp is a production-grade Agent and Model Context Protocol (MCP) server designed to interface directly with DocumentDB MCP Server & A2A Server. DocumentDB is a MongoDB compatible open source document database built on PostgreSQL..

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Key Features

• Consolidated Action-Routed MCP Tools: Minimizes token overhead and eliminates tool bloat in LLM contexts by grouping methods into optimized, togglable tool modules.
• Enterprise-Grade Security: Comprehensive support for Eunomia policies, OIDC token delegation, and granular execution context tracking.
• Integrated Graph Agent: Built-in Pydantic AI agent supporting the Agent Control Protocol (ACP) and standard Web interfaces (AG-UI).
• Native Telemetry & Tracing: Out-of-the-box OpenTelemetry exports and native Langfuse tracing.

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CLI or API

This agent wraps the DocumentDB MCP Server & A2A Server. DocumentDB is a MongoDB compatible open source document database built on PostgreSQL. API. You can interact with it programmatically or via its integrated execution entrypoints.

Detailed instructions on how to use the underlying API wrappers, extended schema bindings, and developer SDK references are maintained in docs/index.md.

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MCP

This server utilizes dynamic Action-Routed tools to optimize token overhead and maximize IDE compatibility.

Available MCP Tools

Auto-generated — do not edit (synced by the mcp-readme-table pre-commit hook).

Condensed action-routed tools (default — MCP_TOOL_MODE=condensed)

MCP Tool	Toggle Env Var	Description
documentdb_analysis	ANALYSISTOOL	Manage analysis operations.
documentdb_collections	COLLECTIONSTOOL	Manage collections operations.
documentdb_crud	CRUDTOOL	Manage crud operations.
documentdb_system	SYSTEMTOOL	Manage system operations.
documentdb_users	USERSTOOL	Manage users operations.

Verbose 1:1 API-mapped tools (MCP_TOOL_MODE=verbose or both)

28 per-operation tools — one per public API method (click to expand)

MCP Tool	Toggle Env Var	Description
documentdb_aggregate	ANALYSIS_CLIENTTOOL	Invoke the aggregate operation.
documentdb_binary_version	SYSTEM_CLIENTTOOL	Invoke the binary_version operation.
documentdb_count_documents	CRUD_CLIENTTOOL	Invoke the count_documents operation.
documentdb_create_collection	SYSTEM_CLIENTTOOL	Invoke the create_collection operation.
documentdb_create_database	SYSTEM_CLIENTTOOL	Invoke the create_database operation.
documentdb_create_user	USERS_CLIENTTOOL	Invoke the create_user operation.
documentdb_delete_many	CRUD_CLIENTTOOL	Invoke the delete_many operation.
documentdb_delete_one	CRUD_CLIENTTOOL	Invoke the delete_one operation.
documentdb_distinct	ANALYSIS_CLIENTTOOL	Invoke the distinct operation.
documentdb_drop_collection	SYSTEM_CLIENTTOOL	Invoke the drop_collection operation.
documentdb_drop_database	SYSTEM_CLIENTTOOL	Invoke the drop_database operation.
documentdb_drop_user	USERS_CLIENTTOOL	Invoke the drop_user operation.
documentdb_find	CRUD_CLIENTTOOL	Invoke the find operation.
documentdb_find_one	CRUD_CLIENTTOOL	Invoke the find_one operation.
documentdb_find_one_and_delete	CRUD_CLIENTTOOL	Invoke the find_one_and_delete operation.
documentdb_find_one_and_replace	CRUD_CLIENTTOOL	Invoke the find_one_and_replace operation.
documentdb_find_one_and_update	CRUD_CLIENTTOOL	Invoke the find_one_and_update operation.
documentdb_insert_many	CRUD_CLIENTTOOL	Invoke the insert_many operation.
documentdb_insert_one	CRUD_CLIENTTOOL	Invoke the insert_one operation.
documentdb_list_collections	SYSTEM_CLIENTTOOL	Invoke the list_collections operation.
documentdb_list_databases	SYSTEM_CLIENTTOOL	Invoke the list_databases operation.
documentdb_rename_collection	SYSTEM_CLIENTTOOL	Invoke the rename_collection operation.
documentdb_replace_one	CRUD_CLIENTTOOL	Invoke the replace_one operation.
documentdb_run_command	SYSTEM_CLIENTTOOL	Invoke the run_command operation.
documentdb_update_many	CRUD_CLIENTTOOL	Invoke the update_many operation.
documentdb_update_one	CRUD_CLIENTTOOL	Invoke the update_one operation.
documentdb_update_user	USERS_CLIENTTOOL	Invoke the update_user operation.
documentdb_users_info	USERS_CLIENTTOOL	Invoke the users_info operation.

5 action-routed tool(s) (default) · 28 verbose 1:1 tool(s). Each is enabled unless its <DOMAIN>TOOL toggle is set false; MCP_TOOL_MODE selects the surface (condensed default · verbose 1:1 · both). Auto-generated — do not edit.

Detailed tool schemas, parameter shapes, and validation constraints are preserved in docs/mcp.md.

Dynamic Tool Selection & Visibility

This MCP server supports dynamic toolset selection and visibility filtering at runtime. This allows you to restrict the set of exposed tools in order to prevent blowing up the LLM's context window.

You can configure tool filtering via multiple input channels:

• CLI Arguments: Pass --tools or --toolsets (or their disabled counterparts --disabled-tools and --disabled-toolsets) during startup.
• Environment Variables: Define standard environment variables:
  • MCP_ENABLED_TOOLS / MCP_DISABLED_TOOLS
  • MCP_ENABLED_TAGS / MCP_DISABLED_TAGS
• HTTP SSE Request Headers: Pass custom headers during transport initialization:
  • x-mcp-enabled-tools / x-mcp-disabled-tools
  • x-mcp-enabled-tags / x-mcp-disabled-tags
• HTTP SSE Request Query Parameters: Append query parameters directly to your transport connection URL:
  • ?tools=tool1,tool2
  • ?tags=tag1

When query strings or parameters are supplied, an LLM-free Knowledge Graph resolution layer (using DynamicToolOrchestrator) matches query intents against known tool tags, names, or descriptions, with safe fallback and automated 24-hour background cache refreshing.

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MCP Configuration Examples

Install the slim [mcp] extra. All examples install documentdb-mcp[mcp] — the MCP-server extra that pulls only the FastMCP / FastAPI tooling (agent-utilities[mcp]). It deliberately excludes the heavy agent runtime (pydantic-ai, the epistemic-graph engine, dspy, llama-index), so uvx / container installs are far smaller. Use the full [agent] extra only when you need the integrated Pydantic AI agent.

stdio Transport (local IDEs — Cursor, Claude Desktop, VS Code)

{
  "mcpServers": {
    "documentdb-mcp": {
      "command": "uvx",
      "args": [
        "--from",
        "documentdb-mcp[mcp]",
        "documentdb-mcp"
      ],
      "env": {
        "MCP_TOOL_MODE": "condensed",
        "ANALYSISTOOL": "True",
        "COLLECTIONSTOOL": "True",
        "CRUDTOOL": "True",
        "MONGODB_HOST": "localhost",
        "MONGODB_PORT": "27017",
        "MONGODB_URI": "mongodb://localhost:27017/",
        "SYSTEMTOOL": "True",
        "USERSTOOL": "True"
      }
    }
  }
}

Streamable-HTTP Transport (networked / production)

{
  "mcpServers": {
    "documentdb-mcp": {
      "command": "uvx",
      "args": [
        "--from",
        "documentdb-mcp[mcp]",
        "documentdb-mcp",
        "--transport",
        "streamable-http",
        "--port",
        "8000"
      ],
      "env": {
        "TRANSPORT": "streamable-http",
        "HOST": "0.0.0.0",
        "PORT": "8000",
        "MCP_TOOL_MODE": "condensed",
        "ANALYSISTOOL": "True",
        "COLLECTIONSTOOL": "True",
        "CRUDTOOL": "True",
        "MONGODB_HOST": "localhost",
        "MONGODB_PORT": "27017",
        "MONGODB_URI": "mongodb://localhost:27017/",
        "SYSTEMTOOL": "True",
        "USERSTOOL": "True"
      }
    }
  }
}

Alternatively, connect to a pre-deployed Streamable-HTTP instance by url:

{
  "mcpServers": {
    "documentdb-mcp": {
      "url": "http://localhost:8000/documentdb-mcp/mcp"
    }
  }
}

Deploying the Streamable-HTTP server via Docker:

docker run -d \
  --name documentdb-mcp-mcp \
  -p 8000:8000 \
  -e TRANSPORT=streamable-http \
  -e HOST=0.0.0.0 \
  -e PORT=8000 \
  -e MCP_TOOL_MODE=condensed \
  -e ANALYSISTOOL=True \
  -e COLLECTIONSTOOL=True \
  -e CRUDTOOL=True \
  -e MONGODB_HOST=localhost \
  -e MONGODB_PORT=27017 \
  -e MONGODB_URI=mongodb://localhost:27017/ \
  -e SYSTEMTOOL=True \
  -e USERSTOOL=True \
  knucklessg1/documentdb-mcp:mcp

Auto-generated from the code-read env surface (MCP_TOOL_MODE + package vars) — do not edit.

Additional Deployment Options

documentdb-mcp can also run as a local container (Docker / Podman / uv) or be consumed from a remote deployment. The Deployment guide has full, copy-paste mcp_config.json for all four transports — stdio, streamable-http, local container / uv, and remote URL:

• Local container / uv — launch the server from mcp_config.json via uvx, docker run, or podman run, or point at a local streamable-http container by url.
• Remote URL — connect to a server deployed behind Caddy at http://documentdb-mcp.arpa/mcp using the "url" key.

Agent

This repository features a fully integrated Pydantic AI Graph Agent. It communicates over the Agent Control Protocol (ACP) and interacts seamlessly with the Agent Web UI (AG-UI) and Terminal interface.

Running the Agent CLI

To start the interactive command-line agent:

# Set credentials
export MONGODB_URI="mongodb://localhost:27017/"
export MONGODB_HOST="localhost"
export MONGODB_PORT="27017"

# Run the agent server
documentdb-agent --provider openai --model-id gpt-4o

Docker Compose Orchestration

The following docker/agent.compose.yml configures the Agent, Web UI, and Terminal Interface together:

version: '3.8'

services:
  documentdb-mcp-mcp:
    image: knucklessg1/documentdb-mcp:mcp
    container_name: documentdb-mcp-mcp
    hostname: documentdb-mcp-mcp
    restart: always
    env_file:
      - ../.env
    environment:
      - PYTHONUNBUFFERED=1
      - HOST=0.0.0.0
      - PORT=8000
      - TRANSPORT=streamable-http
    ports:
      - "8000:8000"
    healthcheck:
      test: ["CMD", "python3", "-c", "import urllib.request; urllib.request.urlopen('http://localhost:8000/health')"]
      interval: 30s
      timeout: 10s
      retries: 3
      start_period: 10s
    logging:
      driver: json-file
      options:
        max-size: "10m"
        max-file: "3"

  documentdb-mcp-agent:
    image: knucklessg1/documentdb-mcp:latest
    container_name: documentdb-mcp-agent
    hostname: documentdb-mcp-agent
    restart: always
    depends_on:
      - documentdb-mcp-mcp
    env_file:
      - ../.env
    command: [ "documentdb-agent" ]
    environment:
      - PYTHONUNBUFFERED=1
      - HOST=0.0.0.0
      - PORT=9015
      - MCP_URL=http://documentdb-mcp-mcp:8000/mcp
      - PROVIDER=${PROVIDER:-openai}
      - MODEL_ID=${MODEL_ID:-gpt-4o}
      - ENABLE_WEB_UI=True
      - ENABLE_OTEL=True
    ports:
      - "9015:9015"
    healthcheck:
      test: ["CMD", "python3", "-c", "import urllib.request; urllib.request.urlopen('http://localhost:9015/health')"]
      interval: 30s
      timeout: 10s
      retries: 3
      start_period: 10s
    logging:
      driver: json-file
      options:
        max-size: "10m"
        max-file: "3"

Detailed graph node architecture explanations, custom skill configurations, and agentic trace guides are available in docs/agent.md.

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Security & Governance

Built directly upon the enterprise-ready agent-utilities core, standard security parameters are fully supported:

Access Control & Policy Enforcement

• Eunomia Policies: Fine-grained, policy-driven tool authorization. Supports none, local embedded (mcp_policies.json), or centralized remote modes.
• OIDC Token Delegation: Compliant with RFC 8693 token exchange for flowing authenticating user credentials from Web UI / ACP → Agent → MCP.
• Scoped Credentials: Execution context runs restricted to the specific caller identity.

Runtime Security Grid

Feature	Functionality	Enablement
Tool Guard	Sensitivity inspection with human-in-the-loop validation	Enabled by default
Prompt Injection Defense	Input scanning, repetition monitoring, and recursive loop blocks	Enabled by default
Context Safety Guard	Stuck-loop detectors and contextual overflow preemptive alerts	Enabled by default

Environment Variables

Package environment variables

Variable	Example	Description
HOST	0.0.0.0
PORT	8000
TRANSPORT	stdio	options: stdio, streamable-http, sse
ENABLE_OTEL	True
OTEL_EXPORTER_OTLP_ENDPOINT	http://localhost:8080/api/public/otel
OTEL_EXPORTER_OTLP_PUBLIC_KEY	pk-...
OTEL_EXPORTER_OTLP_SECRET_KEY	sk-...
OTEL_EXPORTER_OTLP_PROTOCOL	http/protobuf
EUNOMIA_TYPE	none	options: none, embedded, remote
EUNOMIA_POLICY_FILE	mcp_policies.json
EUNOMIA_REMOTE_URL	http://eunomia-server:8000
AUTH_TYPE	scram-sha-256	options: scram-sha-1, scram-sha-256, standard, none
MONGODB_URI	mongodb://localhost:27017/
MONGODB_HOST	localhost
MONGODB_PORT	27017
SYSTEMTOOL	True
COLLECTIONSTOOL	True
USERSTOOL	True
CRUDTOOL	True
ANALYSISTOOL	True

Inherited agent-utilities variables (apply to every connector)

Variable	Example	Description
MCP_TOOL_MODE	condensed	Tool surface: condensed
MCP_ENABLED_TOOLS	—	Comma-separated tool allow-list
MCP_DISABLED_TOOLS	—	Comma-separated tool deny-list
MCP_ENABLED_TAGS	—	Comma-separated tag allow-list
MCP_DISABLED_TAGS	—	Comma-separated tag deny-list
MCP_CLIENT_AUTH	—	Outbound MCP auth (oidc-client-credentials for fleet calls)
OIDC_CLIENT_ID	—	OIDC client id (service-account auth)
OIDC_CLIENT_SECRET	—	OIDC client secret (service-account auth)
DEBUG	False	Verbose logging
PYTHONUNBUFFERED	1	Unbuffered stdout (recommended in containers)
MCP_URL	http://localhost:8000/mcp	URL of the MCP server the agent connects to
PROVIDER	openai	LLM provider for the agent
MODEL_ID	gpt-4o	Model id for the agent
ENABLE_WEB_UI	True	Serve the AG-UI web interface

20 package + 14 inherited variable(s). Auto-generated from .env.example + the shared agent-utilities set — do not edit.

Every variable the server reads, grouped by purpose.

MCP server / transport

Variable	Description	Default
TRANSPORT	stdio, streamable-http, or sse	stdio
HOST	Bind host (HTTP transports)	0.0.0.0
PORT	Bind port (HTTP transports)	8000
MCP_TOOL_MODE	Tool surface: condensed, verbose, or both	condensed
MCP_ENABLED_TOOLS / MCP_DISABLED_TOOLS	Comma-separated tool allow/deny list	—
MCP_ENABLED_TAGS / MCP_DISABLED_TAGS	Comma-separated tag allow/deny list	—
DEBUG	Verbose logging	False
PYTHONUNBUFFERED	Unbuffered stdout (recommended in containers)	1

Connection & Credentials

Variable	Description	Default
AUTH_TYPE	Auth mechanism: scram-sha-256, scram-sha-1, standard, none	scram-sha-256
MONGODB_URI	MongoDB-compatible driver connection URI	mongodb://localhost:27017/
MONGODB_HOST	MongoDB-compatible driver host	localhost
MONGODB_PORT	MongoDB-compatible driver port	27017

Tool toggles

Each action-routed tool can be disabled individually via its toggle env var (set to false). The full list is in the Available MCP Tools table above.

Variable	Tool
SYSTEMTOOL	documentdb_system
COLLECTIONSTOOL	documentdb_collections
USERSTOOL	documentdb_users
CRUDTOOL	documentdb_crud
ANALYSISTOOL	documentdb_analysis

Telemetry & governance

Variable	Description	Default
ENABLE_OTEL	Enable OpenTelemetry export	True
OTEL_EXPORTER_OTLP_ENDPOINT	OTLP collector endpoint	—
OTEL_EXPORTER_OTLP_PUBLIC_KEY / OTEL_EXPORTER_OTLP_SECRET_KEY	OTLP auth keys	—
OTEL_EXPORTER_OTLP_PROTOCOL	OTLP protocol (e.g. http/protobuf)	—
EUNOMIA_TYPE	Authorization mode: none, embedded, remote	none
EUNOMIA_POLICY_FILE	Embedded policy file	mcp_policies.json
EUNOMIA_REMOTE_URL	Remote Eunomia server URL	—

Agent CLI (full [agent] runtime only)

Variable	Description	Default
MCP_URL	URL of the MCP server the agent connects to	http://localhost:8000/mcp
PROVIDER	LLM provider (e.g. openai)	openai
MODEL_ID	Model id (e.g. gpt-4o)	gpt-4o
ENABLE_WEB_UI	Serve the AG-UI web interface	True

See .env.example for a copy-paste starting point.

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Installation

Pick the extra that matches what you want to run:

Extra	Installs	Use when
documentdb-mcp[mcp]	Slim MCP server only (agent-utilities[mcp] — FastMCP/FastAPI)	You only run the MCP server (smallest install / image)
documentdb-mcp[agent]	Full agent runtime (agent-utilities[agent,logfire] — Pydantic AI + the epistemic-graph engine)	You run the integrated agent
documentdb-mcp[all]	Everything (mcp + agent + logfire)	Development / both surfaces

# MCP server only (recommended for tool hosting — slim deps)
uv pip install "documentdb-mcp[mcp]"

# Full agent runtime (Pydantic AI + epistemic-graph engine)
uv pip install "documentdb-mcp[agent]"

# Everything (development)
uv pip install "documentdb-mcp[all]"      # or: python -m pip install "documentdb-mcp[all]"

Container images (:mcp vs :agent)

One multi-stage docker/Dockerfile builds two right-sized images, selected by --target:

Image tag	Build target	Contents	Entrypoint
knucklessg1/documentdb-mcp:mcp	--target mcp	documentdb-mcp[mcp] — slim, no engine/pydantic-ai/dspy/llama-index/tree-sitter	documentdb-mcp
knucklessg1/documentdb-mcp:latest	--target agent (default)	documentdb-mcp[agent] — full agent runtime + epistemic-graph engine	documentdb-agent

docker build --target mcp   -t knucklessg1/documentdb-mcp:mcp    docker/   # slim MCP server
docker build --target agent -t knucklessg1/documentdb-mcp:latest docker/   # full agent

docker/mcp.compose.yml runs the slim :mcp server; docker/agent.compose.yml runs the agent (:latest) with a co-located :mcp sidecar.

Knowledge-graph database (epistemic-graph)

The full agent ([agent] / :latest) embeds the epistemic-graph engine (pulled in transitively via agent-utilities[agent]). For production — or to share one knowledge graph across multiple agents — run epistemic-graph as its own database container and point the agent at it instead of embedding it. Deployment recipes (single-node + Raft HA), connection config, and the full database architecture (with diagrams) are documented in the epistemic-graph deployment guide. The slim [mcp] server does not require the database. (This is distinct from the DocumentDB backing store the MCP tools operate on — see the connection variables above.)

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Documentation

The complete documentation is published as the official documentation site and is the recommended reference for installation, deployment, and day-to-day operation.

Page	Contents
Installation	pip, source, extras, prebuilt Docker image
Deployment	run the MCP server and agent, Compose, Caddy + Technitium, env config
Usage	the MCP tools, the DocumentDBApi client, the CLI
Backing Platform	deploy DocumentDB with Docker
Overview	ecosystem role, tool modules, configuration
Concepts	concept registry (CONCEPT:DOCDB-*)

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Repository Owners

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Contribute

Contributions are welcome! Please ensure code quality by executing local checks before submitting pull requests:

• Format code using ruff format .
• Lint code using ruff check .
• Validate type-safety with mypy .
• Execute test suites using pytest

Deploy with agent-os-genesis

This package can be provisioned for you — skill-guided — by the agent-os-genesis universal skill (its single-package deploy mode): it picks your install method, seeds secrets to OpenBao/Vault (or .env), trusts your enterprise CA, registers the MCP server, and verifies it — the same machinery that stands up the whole Agent OS, narrowed to just this package. Ask your agent to "deploy documentdb-mcp with agent-os-genesis".

Install mode	Command
Bare-metal, prod (PyPI)	uvx documentdb-mcp · or uv tool install documentdb-mcp
Bare-metal, dev (editable)	uv pip install -e ".[all]" · or pip install -e ".[all]"
Container, prod	deploy knucklessg1/documentdb-mcp:latest via docker-compose / swarm / podman / podman-compose / kubernetes
Container, dev (editable)	deploy docker/compose.dev.yml (source-mounted at /src; edits live on restart)

Secrets are read-existing + seeded via vault_sync — you are only prompted for what's missing.