just-dna-registry 0.9.1

Reference client (and optional server) for the just-dna annotation module registry

just-dna-registry

A catalog / publish / download REST API for just-dna-lite annotation modules. Authors publish module specs; the server validates, recompiles, stores, and indexes them; consumers browse, search, download, and integrity-verify. There is no frontend here — the webui and Dagster pipelines are consumers of this API.

Live: https://module-registry.just-dna.life · health GET /health · API under /api/v1 · interactive docs at /docs.

See docs/SPEC.md for the full design and docs/ROADMAP.md for build status.

Install

Two shapes from one package:

pip install just-dna-registry            # client only (lightweight): httpx + just-dna-format
pip install just-dna-registry[server]    # + FastAPI app, server-side recompile, storage, admin

The default install is the reference client — import it instead of re-implementing the REST calls + integrity verification:

from just_dna_registry import RegistryClient

with RegistryClient("https://module-registry.just-dna.life", token="mk_live_…") as mkt:
    print(mkt.list_modules())
    mkt.import_module("just-dna-seq", "coronary", "1.0.0", "coronary_v1.zip")   # publish a zip
    mkt.download("just-dna-seq", "coronary", "1.0.0", "./coronary")             # fetch + verify
    mkt.lookup_by_digest("sha256:…")                                            # already published?

Or the registry-client CLI (ships with the client install):

export REGISTRY_URL=https://module-registry.just-dna.life REGISTRY_TOKEN=mk_live_…
registry-client list
registry-client download just-dna-seq coronary 1.0.0 ./coronary

Run the server (needs [server])

uv sync                      # dev env (includes the server extra + tests)
uv run pytest -q
uv run registry issue-key <account> -n <namespace>   # mint an API key
uv run registry serve --host 0.0.0.0 --port 8000     # /docs for the interactive API

What works today

• Read/catalog API — list + search (?q, ?gene, ?category, ?genome_build, ?owner, ?license, ?sort), module detail, versions, manifest (SPEC §8.1–§8.4).
• Publish — multipart spec upload or zip/tar.gz archive import (incl. legacy parquet-only via reverse-engineering), server-side recompiled so compile_success/digest are trusted.
• Download + integrity — per-file + streamable tar.gz, verify-then-install via just_dna_format.verify_manifest (SPEC §5).
• Logs over the API; digest lookup; auth (static API keys) + namespace ownership; yank / un-yank; ops-only hard removal (registry remove-namespace/-module).

Architecture

The manifest.json of each version is the source of truth; the SQLite catalog is a rebuildable projection of it. The manifest contract and integrity primitives live in the shared, dependency-light just-dna-format package so this service and the compiler never drift.

src/just_dna_registry/
  config.py            # Pydantic settings
  db/                  # SQLite schema + repository (the projection)
  storage/             # StorageBackend interface + LocalStorage (HfStorage pending)
  models/api.py        # card / detail / version / page response models
  services/            # catalog (reads) + ingest (manifest -> projection)
  api/                 # FastAPI app, deps (auth/pagination), routers
  cli.py               # `registry` admin CLI