roger/docker-compose.yaml at develop · helxplatform/roger · GitHub

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version: '3.8'

x-airflow-common: &airflow-common
  build: .
  environment: &airflow_common_environment
    AIRFLOW__CORE__EXECUTOR: LocalExecutor
    AIRFLOW__DATABASE__SQL_ALCHEMY_CONN: postgresql+psycopg2://airflow:airflow@postgres:5432/airflow
    AIRFLOW__CORE__FERNET_KEY: ''
    AIRFLOW__CORE__DAGS_ARE_PAUSED_AT_CREATION: 'true'
    AIRFLOW__CORE__LOAD_EXAMPLES: 'false'
    AIRFLOW__API__AUTH_BACKENDS: 'airflow.api.auth.backend.basic_auth,airflow.api.auth.backend.session'
    AIRFLOW__SCHEDULER__ENABLE_HEALTH_CHECK: 'true'
    AIRFLOW__CORE__SIMPLE_AUTH_MANAGER_USERS: 'admin:Admin'
    ROGER_ELASTICSEARCH_HOST: "elasticsearch"
    ROGER_ELASTICSEARCH_PASSWORD: ""
    ROGER_ELASTICSEARCH_SCHEME: "http"
    ROGER_ELASTICSEARCH_USERNAME: "elastic"
    ROGER_REDISGRAPH_GRAPH: "test"
    ROGER_REDISGRAPH_HOST: "redis-stack"
    ROGER_REDISGRAPH_PASSWORD: ""
    ROGER_REDISGRAPH_PORT: "6379"
    ROGER_KGX_DATA__SETS: ${KGX_DATA_SETS}
    ROGER_LAKEFS__CONFIG_ACCESS__KEY__ID: ${LAKEFS_ACCESS_KEY}
    ROGER_LAKEFS__CONFIG_BRANCH: ${LAKEFS_BRANCH}
    ROGER_LAKEFS__CONFIG_ENABLED: "true"
    ROGER_LAKEFS__CONFIG_HOST: ${LAKEFS_URL}
    ROGER_LAKEFS__CONFIG_REPO: ${LAKEFS_REPO}
    ROGER_LAKEFS__CONFIG_SECRET__ACCESS__KEY: ${LAKEFS_SECRET_KEY}
    ROGER_DUG__INPUTS_DATA__SETS: ${INPUT_DATA_SETS}
    ROGER_ANNOTATION_ANNOTATOR__ARGS_SAPBERT_CLASSIFICATION__URL: ${BIOMEGATRON_URL}
    ROGER_ANNOTATION_ANNOTATOR__ARGS_SAPBERT_ANNOTATOR__URL : ${SAPBERT_URL}
    ROGER_ANNOTATION_NORMALIZER : ${NODE_NORM_URL}
    ROGER_ANNOTATION_SYNONYM__SERVICE : ${NAME_RES_URL}
  volumes:
    - ./dags:/opt/airflow/dags
    - ./logs:/opt/airflow/logs
    - ./plugins:/opt/airflow/plugins
    - ./config:/opt/airflow/config
  depends_on:
    postgres:
      condition: service_healthy
  networks:
    - airflow-network

services:
  postgres:
    image: postgres:15-alpine
    environment:
      POSTGRES_USER: airflow
      POSTGRES_PASSWORD: airflow
      POSTGRES_DB: airflow
    volumes:
      - postgres-db-volume:/var/lib/postgresql/data
    healthcheck:
      test: ["CMD", "pg_isready", "-U", "airflow"]
      interval: 10s
      retries: 5
      start_period: 5s
    ports:
      - "5432:5432"
    networks:
      - airflow-network

  # --- NEW: Elasticsearch Service ---
  elasticsearch:
    image: docker.elastic.co/elasticsearch/elasticsearch:8.11.1
    environment:
      - discovery.type=single-node
      - xpack.security.enabled=false
      - ES_JAVA_OPTS=-Xms512m -Xmx512m # Limit RAM usage for dev
    volumes:
      - elasticsearch-data:/usr/share/elasticsearch/data
    ports:
      - "9200:9200" # REST API
      - "9300:9300" # Internal transport
    networks:
      - airflow-network

  # --- NEW: Redis Stack (includes RedisGraph/FalkorDB) ---
  redis-stack:
    image: redis/redis-stack:latest
    volumes:
      - redis-stack-data:/data
    ports:
      - "6379:6379" # Redis port
      - "8001:8001" # RedisInsight UI
    healthcheck:
      test: [ "CMD", "redis-cli", "ping" ]
      interval: 10s
      retries: 5
      start_period: 5s
    networks:
      - airflow-network

  airflow-init:
    <<: *airflow-common
    entrypoint: /bin/bash
    command:
      - -c
      - |
        mkdir -p /opt/airflow/logs /opt/airflow/dags /opt/airflow/plugins
        airflow db migrate
    depends_on:
      postgres:
        condition: service_healthy

  airflow-webserver:
    <<: *airflow-common
    command: airflow api-server
    ports:
      - "8080:8080"
    healthcheck:
      test: ["CMD", "curl", "--fail", "http://localhost:8080/health"]
      interval: 30s
      timeout: 10s
      retries: 5
      start_period: 30s
    depends_on:
      airflow-init:
        condition: service_completed_successfully

  airflow-scheduler:
    <<: *airflow-common
    command: airflow scheduler
    healthcheck:
      test: ["CMD", "airflow", "jobs", "check", "--job-type", "SchedulerJob", "--hostname", "$${HOSTNAME}"]
      interval: 30s
      timeout: 10s
      retries: 5
      start_period: 30s
    depends_on:
      airflow-init:
        condition: service_completed_successfully

  airflow-triggerer:
    <<: *airflow-common
    command: airflow triggerer
    healthcheck:
      test: ["CMD-SHELL", 'airflow jobs check --job-type TriggererJob --hostname "$${HOSTNAME}"']
      interval: 30s
      timeout: 10s
      retries: 5
      start_period: 30s
    depends_on:
      airflow-init:
        condition: service_completed_successfully

  airflow-dag-processor:
    <<: *airflow-common
    command: airflow dag-processor
    healthcheck:
      test: [ "CMD", "airflow", "jobs", "check", "--job-type", "DagProcessorJob", "--hostname", "$${HOSTNAME}" ]
      interval: 30s
      timeout: 10s
      retries: 5
      start_period: 30s
    depends_on:
      airflow-init:
        condition: service_completed_successfully

volumes:
  postgres-db-volume:
  elasticsearch-data: # <-- New volume for Elasticsearch
  redis-stack-data:
networks:
  airflow-network:
    driver: bridge