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Bento Service Registry

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Author: David Lougheed, Canadian Centre for Computational Genomics

Prototype implementation of the GA4GH service registry API for the Bento platform.

Development

Getting set up

  1. Install poetry: 
    pip install poetry
  2. Install project dependencies in a Poetry-managed virtual environment: 
    poetry install

Running the service locally

To run the service in development mode, use the following command:

poetry run python -m debugpy --listen "0.0.0.0:5678" -m uvicorn \
  --factory "bento_service_registry.app:create_app" \
  --host 0.0.0.0 \
  --port "${INTERNAL_PORT}" \
  --reload

Running tests

To run tests and linting, run Tox:

poetry run tox

Configuration

The following environment variables are used to configure the bento_service_registry service:

# Debug mode:
BENTO_DEBUG=false

# Whether we're in a local/container-local context
BENTO_CONTAINER_LOCAL=false

# When this is off, requests made to other services in the 
# registry will not validate SSL certificates.
BENTO_VALIDATE_SSL=true

# Following the bento_services.json 'schema'
# A JSON object of services registered in the service registry instance.
# CHORD_SERVICES also works here.
BENTO_SERVICES=bento_services.json

# Common URL base for all services
# CHORD_URL also works here.
BENTO_URL=http://127.0.0.1:5000/
BENTO_PUBLIC_URL=${BENTO_URL}  # By default, maps to the same URL - can be used for interpolation
BENTO_PORTAL_PUBLIC_URL=${BENTO_URL}  # By default, maps to the same URL - can be used for interpolation

# Timeout, in seconds (integers only), for contacting services from the JSON
CONTACT_TIMEOUT=5

# Service ID for the /service-info endpoint
SERVICE_ID=ca.c3g.bento:service-registry

# CORS origins for all requests
CORS_ORIGINS='*'

# Log level (debug/info/warning/error)
LOG_LEVEL=debug

# Authorization settings
BENTO_AUTHZ_SERVICE_URL=http://bentov2.local/api/authorization
BENTO_AUTHZ_ENABLED=true