neuropoly-db/docker-compose.yml at main · neuropoly/neuropoly-db · GitHub

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# =============================================================================
# NeuroPoly DB — Root Compose
# Layers: root .env → recipes compose → root service overrides
# =============================================================================

include:
  - ./neurobagel-recipes/docker-compose.yml

services:
  # Override federation volumes: root-level mount for local_nb_nodes.json
  # (recipes compose tries to mount from recipes/ which doesn't have the file)
  federation:
    volumes: !override
      - ./local_nb_nodes.json:/usr/src/local_nb_nodes.json:ro

  # Seed datasets from workspace directory at devcontainer build time
  init_data:
    volumes: !override
      - ./seed-datasets:/input_data:ro
      - neurobagel_data:/data

  # Don't publish query_federation directly; the proxy serves it.
  query_federation:
    ports: !override []

  # Inject custom imaging vocab into the NeuroBagel API at startup.
  # !override replaces the upstream api.volumes list entirely to avoid
  # duplicate container mount paths.
  api:
    volumes: !override
      - "./scripts/neuropoly_api_entrypoint.sh:/usr/src/api_entrypoint.sh:ro"
      - "./scripts/inject_vocab_patch.py:/usr/src/neurobagel/inject_vocab_patch.py:ro"
      - "./config/neuropoly_imaging_modalities.json:/usr/src/neurobagel/neuropoly_imaging_modalities.json:ro"
      - "neurobagel_data:/data"

  # Dev reverse proxy — single port for both query UI and federation API.
  # This lets VS Code SSH forward a single port to reach everything.
  proxy:
    image: nginx:alpine
    ports:
      - "${NB_PROXY_PORT_HOST:-9000}:80"
    volumes:
      - ./config/nginx/dev-proxy.conf:/etc/nginx/conf.d/default.conf:ro
    depends_on:
      - federation
      - query_federation