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Vojtech Rysanek 7147bac079 feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI
Follow-up to the RBAC v13 + marketplace work in the parent commit. Addresses
deferred Devin findings, gemini-flagged blockers, and adds three guard rails.

== Schema v14 — FK constraints on user_group_members + resource_grants ==
Adds DuckDB foreign-key constraints so cascade deletes can no longer leave
orphaned member / grant rows pointing at a deleted group_id (which were
relying on application-level cascades up to v13). Migration is RENAME →
CREATE-with-FK → INSERT → DROP, wrapped in BEGIN TRANSACTION so a partial
failure rolls back without leaving the DB at a half-applied schema.

== AGNES_ENABLE_TABLE_GRANTS feature flag (default off) ==
ResourceType.TABLE was shipped in the parent commit as listing-only — admins
can record grants but runtime enforcement still flows through legacy
dataset_permissions. To avoid the misleading-UX surface area, the chip is
hidden from /admin/access and POST /api/admin/grants returns 422 with the
env-var name in detail until the operator opts in. Existing TABLE rows in
resource_grants stay listable + deletable so cleanup is never blocked.

Helpers: is_resource_type_enabled(rt), enabled_resource_types().

== Break-glass admin CLI ==
`da admin break-glass <user>` adds the user to the Admin user_group with
source='system_seed' regardless of RBAC state. Bypasses authentication —
relies on filesystem access to ${DATA_DIR}/state/system.duckdb implying
host-level trust. Recovery path when the operator has locked themselves
out of /admin/access.

== Devin round-2 fixes (deferred on b4ec4c4) ==
- src/repositories/user_groups.py — narrow update() guard from blocking any
  mutation on system groups to blocking name change only. Description edits
  now pass through. Endpoint pre-check stays as defense-in-depth. Prior
  behavior surfaced as a misleading 409 'Cannot rename a system group' on
  description-only PATCH.
- app/api/access.py:delete_group — wrap cascade DELETEs + repo.delete in
  BEGIN TRANSACTION / COMMIT / ROLLBACK. Prevents orphan rows if any
  DELETE fails after the user_groups row is gone.
- app/marketplace_server/{packager,router}.py — split compute_etag_for_user()
  from build_zip(); router resolves etag first and 304-shorts before any
  file read or ZIP_DEFLATED. In-process cachetools.TTLCache (default 120s,
  env-tunable via AGNES_MARKETPLACE_ETAG_TTL, set 0 to disable).
  invalidate_etag_cache() called by sync to force re-hash on content drift.

== Tests ==
- TestTableGrantsFeatureFlag (4 cases) — endpoint exclude/include, grant
  rejection/acceptance under the flag.
- test_v12_to_v13_finalize_rollback_on_failure — destructive: monkeypatches
  _seed_system_groups to raise mid-transaction, asserts schema_version stays
  at 12, legacy tables intact, new tables empty (rollback fired). Then
  restores the real function and asserts the retry succeeds.
- test_update_system_group_description_allowed,
  test_update_system_group_same_name_no_op — repo-level coverage of the
  narrowed guard.
2026-04-28 14:25:13 +02:00
.github/workflows chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
app feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI 2026-04-28 14:25:13 +02:00
cli feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI 2026-04-28 14:25:13 +02:00
config chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
connectors fix(ops): #81 Group B — Keboola partial-failure exit code 2 (squashed) (#99) 2026-04-27 21:52:46 +02:00
dev_docs docs: update stale v1 docs to v2 Docker/FastAPI/DuckDB architecture 2026-04-09 18:44:25 +02:00
docs feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
infra chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
scripts feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
services feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
src feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI 2026-04-28 14:25:13 +02:00
tests feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI 2026-04-28 14:25:13 +02:00
.dockerignore refactor: consolidate deps into pyproject.toml, remove requirements.txt 2026-04-09 13:17:59 +02:00
.gitignore infra: add bootstrap-gcp.sh for per-customer GCP setup 2026-04-21 16:18:35 +02:00
ARCHITECTURE.md Update docs for modular architecture (auth/, services/, scripts/) 2026-03-09 13:11:40 +01:00
Caddyfile chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
CHANGELOG.md fix: #81 Group C — view-name collision detection (schema v10, squashed) (#100) 2026-04-27 22:09:49 +02:00
CLAUDE.md feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
docker-compose.ci.yml feat: multi-instance deployment — all 14 must-have items from spec 2026-04-10 11:57:42 +02:00
docker-compose.host-mount.yml feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
docker-compose.local-dev.yml release(0.11.2): LOCAL_DEV_GROUPS dev mock + Makefile defaults + docs/local-development.md (#70) 2026-04-26 16:48:55 +02:00
docker-compose.override.yml chore(deploy): trust proxy headers + document HTTPS env vars (#48) 2026-04-24 08:52:53 +02:00
docker-compose.prod.yml fix(ci): move bind-mount of /data to separate overlay, fix CI smoke test 2026-04-21 16:54:18 +02:00
docker-compose.test.yml chore(deploy): trust proxy headers + document HTTPS env vars (#48) 2026-04-24 08:52:53 +02:00
docker-compose.tls.yml feat(tls): corporate-CA HTTPS with URL-driven rotation, on-VM CSR gen, self-signed fallback (#51) 2026-04-25 19:51:25 +00:00
docker-compose.yml chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
Dockerfile feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
LICENSE OSS cleanup: remove internal references, harden deployment, add config env interpolation 2026-03-09 07:59:57 +01:00
Makefile release(0.11.2): LOCAL_DEV_GROUPS dev mock + Makefile defaults + docs/local-development.md (#70) 2026-04-26 16:48:55 +02:00
pyproject.toml feat(rbac+marketplace): schema v14 FK + AGNES_ENABLE_TABLE_GRANTS + break-glass CLI 2026-04-28 14:25:13 +02:00
pytest.ini feat(rbac+marketplace): RBAC v13 + Claude Code marketplace + #81/#83/#44 hardening 2026-04-28 14:25:04 +02:00
README.md chore(oss): isolate customer-specific deploy bits from scripts/grpn/ (#88, wave 1) (#94) 2026-04-27 20:24:34 +02:00
uv.lock chore(deps): bump python-multipart from 0.0.24 to 0.0.26 2026-04-21 13:26:19 +00:00

Agnes — AI Data Analyst

Agnes is an open-source data distribution platform for AI analytical systems. It extracts data from configured sources into DuckDB, serves it via a FastAPI backend, and distributes Parquet files to analysts who query them locally using Claude Code and DuckDB.

Each data source produces a self-describing extract.duckdb file. The SyncOrchestrator attaches all extract databases into a master analytics.duckdb, making every table available through a unified view layer without copying data unnecessarily.

Architecture: extract.duckdb Contract

Every connector produces the same output structure:

/data/extracts/{source_name}/
├── extract.duckdb          ← _meta table + views
└── data/                   ← parquet files (local sources only)

The orchestrator scans /data/extracts/*/extract.duckdb, attaches each into analytics.duckdb, and creates master views.

┌──────────────┐  ┌──────────────┐  ┌──────────────┐
│   Keboola    │  │   BigQuery   │  │   Jira       │
│  extractor   │  │  extractor   │  │  webhooks    │
│ (DuckDB ext) │  │ (remote BQ)  │  │ (incremental)│
└──────┬───────┘  └──────┬───────┘  └──────┬───────┘
       │                 │                 │
       ▼                 ▼                 ▼
   extract.duckdb    extract.duckdb    extract.duckdb
   + data/*.parquet  (views → BQ)      + data/*.parquet
       │                 │                 │
       └─────────────────┼─────────────────┘
                         ▼
              SyncOrchestrator.rebuild()
              ATTACH → master views in analytics.duckdb
                         │
              ┌──────────┼──────────┐
              ▼          ▼          ▼
          FastAPI      CLI
          (serve)    (da sync)

Supported Data Sources

Source Mode Description
Keboola Batch pull DuckDB Keboola extension downloads tables to Parquet on a schedule
BigQuery Remote attach DuckDB BQ extension; queries execute in BigQuery, no local download
Jira Real-time push Webhook receiver updates Parquet files incrementally

Adding a new source means creating connectors/<name>/extractor.py that produces extract.duckdb with a _meta table (table_name, description, rows, size_bytes, extracted_at, query_mode). The orchestrator attaches it automatically.

Quick Start with Docker

# Clone the repository
git clone https://github.com/keboola/agnes-the-ai-analyst.git
cd agnes-the-ai-analyst

# Copy and edit configuration
cp config/instance.yaml.example config/instance.yaml
cp config/.env.template .env
# Edit both files for your environment

# Start the app and scheduler
docker compose up

# Start with all optional services (Telegram bot, etc.)
docker compose --profile full up

# Start with TLS (Caddy on :443 with corporate-CA certs from /data/state/certs)
docker compose -f docker-compose.yml -f docker-compose.prod.yml -f docker-compose.tls.yml \
    --profile tls up -d

Once running, the FastAPI app is available at http://localhost:8000 (or https://$DOMAIN in TLS mode). See docs/DEPLOYMENT.md for cert provisioning + auto-rotation via scripts/ops/agnes-tls-rotate.sh. Trigger a manual sync:

curl -X POST http://localhost:8000/api/sync/trigger

Development Setup

# Create and activate virtual environment
python3 -m venv .venv && source .venv/bin/activate

# Install dependencies
uv pip install ".[dev]"

# Run FastAPI locally with hot reload
uvicorn app.main:app --reload

# Run the test suite
pytest tests/ -v

Project Structure

├── src/                    # Core engine
│   ├── db.py               # DuckDB schema (system.duckdb, analytics.duckdb)
│   ├── orchestrator.py     # SyncOrchestrator — ATTACHes extract.duckdb files
│   ├── repositories/       # DuckDB-backed CRUD (sync_state, table_registry, users, etc.)
│   ├── profiler.py         # Data profiling
│   └── catalog_export.py   # OpenMetadata catalog export
├── app/                    # FastAPI application
│   ├── main.py             # App setup, router registration
│   ├── api/                # REST API (sync, data, catalog, admin, auth)
│   ├── auth/               # Auth providers (Google OAuth, email magic link, desktop JWT)
│   └── web/                # HTML dashboard routes
├── connectors/             # Data source connectors (extract.duckdb contract)
│   ├── keboola/            # Keboola: extractor.py (DuckDB extension) + client.py (fallback)
│   ├── bigquery/           # BigQuery: extractor.py (remote-only via DuckDB BQ extension)
│   └── jira/               # Jira: webhook + incremental parquet → extract.duckdb
├── cli/                    # CLI tool (`da sync`, `da query`, `da admin`)
├── services/               # Standalone services (scheduler, telegram_bot, ws_gateway, etc.)
├── scripts/                # Utility + migration scripts
├── config/                 # Configuration templates (instance.yaml.example)
├── docs/                   # Documentation + metric YAML definitions
└── tests/                  # Test suite (633 tests)

Configuration

File Purpose
config/instance.yaml Instance-specific settings: branding, data source type, auth provider, Google domain
.env Secrets and environment variables — never committed
system.duckdb table_registry table Table definitions managed via POST /api/admin/tables/{id} or the web UI

Copy the example to get started:

cp config/instance.yaml.example config/instance.yaml

See config/instance.yaml.example for all available options.

Documentation

Contributing

  1. Fork the repository and create a feature branch.
  2. Run pytest tests/ -v to verify all tests pass before opening a pull request.
  3. Keep commits focused and messages concise.
  4. Open a pull request against main with a clear description of the change.

For bugs and feature requests, open a GitHub issue.

License

This project is licensed under the MIT License.