docker-compose.yaml

# 🧪 Docker Composition for the Clinical Data App of MCL
# ======================================================
#
# This is the Docker Composition for the Clinical Data App for the Consortium
# for Molecular and Cellular Characterization of Screen-Detected Lesions.


# Services
# --------
#
services:
    # Database
    # ~~~~~~~~
    #
    # Good old relational database!
    db:
        container_name: clinical-db
        image: postgres:12.4
        volumes:
            -
                type: bind
                source: ${CLINICAL_DATA_DIR:-/usr/local/labcas/mcl/clinic/docker-data}/postgresql
                target: /var/lib/postgresql/data
                consistency: consistent
        ports:
            -
                # Map container's PostgreSQL port to the traditional port, or whatever CLINICAL_DB_PORT is
                target: 5432
                published: ${CLINICAL_DB_PORT:-5432}
                protocol: tcp
                mode: host
        networks:
            - mainbus
            - default
        environment:
            # Empty settings inherit values from the host's environment
            CLINICAL_DATA_DIR:
            CLINICAL_DB_PORT:
            POSTGRES_PASSWORD:
        restart: always
        stop_grace_period: 29s
        labels:
            org.label-schema.name: MCL Clinical DB
            org.label-schema.description: PostgreSQL database serving the MCL Clinical Data App.

    # ReST API
    # ~~~~~~~~
    #
    # A Python app using Pyramid providing a ReST API; version 1
    api-v1:
        container_name: clinical-api-v1
        image: ${MCL_IMAGE_OWNER-nutjob4life/}mcl-infirmary:${CLINICAL_API_V1_VERSION:-1.0.0}
        ports:
            -
                # Map container's Pyramid app on 8080 to a more traditional (for Pyramid) 6543
                # or whatever CLINICAL_API_PORT is.
                target: 8080
                published: ${CLINICAL_API_PORT:-6543}
                protocol: tcp
                mode: host
        networks:
            - mainbus
            - default
        environment:
            DATABASE: postgresql://mcl:mcl@db/clinical_data
            LDAP_SERVER: ldaps://edrn-ds.jpl.nasa.gov
            # Empty settings inherit values from the host's environment
            CLINICAL_API_PORT:
            CLINICAL_API_VERSION:
        depends_on:
            - db
        restart: always
        stop_grace_period: 13s
        labels:
            org.label-schema.name: MCL Clinical API v1
            org.label-schema.description: Version 1 of the ReST API serving the MCL Clinical Data App.
    api-v2:
        container_name: clinical-api-v2
        image: ${MCL_IMAGE_OWNER-nutjob4life/}mcl-infirmary:${CLINICAL_API_V2_VERSION:-1.0.2}
        ports:
            -
                # Map container's Pyramid app on 8080 to 6544
                target: 8080
                published: ${CLINICAL_API_V2_PORT:-6544}
                protocol: tcp
                mode: host
        networks:
            - mainbus
            - default
        environment:
            DATABASE: postgresql://mcl:mcl@db/clinical_data
            LDAP_SERVER: ldaps://edrn-ds.jpl.nasa.gov
            # Empty settings inherit values from the host's environment
            CLINICAL_API_PORT:
            CLINICAL_API_VERSION:
        depends_on:
            - db
        restart: always
        stop_grace_period: 13s
        labels:
            org.label-schema.name: MCL Clinical API v2
            org.label-schema.description: Version 2 of the ReST API serving the MCL Clinical Data App.
    api-v3:
        container_name: clinical-api-v3
        image: ${MCL_IMAGE_OWNER-nutjob4life/}mcl-infirmary:${CLINICAL_API_V3_VERSION:-latest}
        ports:
            -
                # Map container's Pyramid app on 8080 to 6544
                target: 8080
                published: ${CLINICAL_API_V3_PORT:-6545}
                protocol: tcp
                mode: host
        networks:
            - mainbus
            - default
        environment:
            DATABASE: postgresql://mcl:mcl@db/clinical_data_v3
            LDAP_SERVER: ldaps://edrn-ds.jpl.nasa.gov
            # Empty settings inherit values from the host's environment
            CLINICAL_API_PORT:
            CLINICAL_API_VERSION:
        depends_on:
            - db
        restart: always
        stop_grace_period: 13s
        labels:
            org.label-schema.name: MCL Clinical API v3
            org.label-schema.description: Version 3 of the ReST API serving the MCL Clinical Data App.



# Networks
# --------
#
# Thankfully, this is pretty simple.
networks:
    mainbus:
        driver: bridge
        labels:
            org.label-schema.name: MCL Main Bus Network
            org.label-schema.description: Internal bridge network so the services that comprise the MCL Clinical Data app may communicate.
    default:
        driver: bridge


# Misc
# ----
#
# Only thing we have here is some Docker Compose metadata.
version: '3.7'