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docker-compose.yml
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docker-compose.yml
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# Services auth, download and s3inbox in this file will try to connect to the ls-aai-mock service.
# Remember to start the later while this stack is being deployed. See documentation for more details.
services:
credentials:
container_name: credentials
command:
- "/bin/sh"
- "/scripts/make_credentials.sh"
depends_on:
rabbitmq:
condition: service_healthy
postgres:
condition: service_healthy
environment:
- PGPASSWORD=${credentials_PGPASSWORD}
image: python:3.10-slim
networks:
- secure
volumes:
- ./scripts:/scripts
- shared:/shared
- cacert:/cacert
auth:
container_name: auth
command: sda-auth
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
depends_on:
credentials:
condition: service_completed_successfully
environment:
- OIDC_ID=${auth_ELIXIR_ID}
- OIDC_PROVIDER=http://${DOCKERHOST:-localhost}:8080/oidc/
- OIDC_SECRET=${auth_ELIXIR_SECRET}
- OIDC_JWKPATH=jwk
- OIDC_REDIRECTURL=http://localhost:8085/oidc/login
- LOG_LEVEL=debug
- RESIGNJWT=false
extra_hosts:
- ${DOCKERHOST:-localhost}:host-gateway
volumes:
- shared:/shared
- ${CONFIG_FILEPATH}:/config.yaml
ports:
- 8085:8080
restart: always
rabbitmq:
container_name: rabbitmq
environment:
- RABBITMQ_DEFAULT_PASS=${rabbitmq_MQ_PASSWORD}
- RABBITMQ_DEFAULT_USER=${rabbitmq_MQ_USER}
healthcheck:
test:
[
"CMD",
"sh",
"-c",
"rabbitmq-diagnostics -q check_running && rabbitmq-diagnostics -q check_local_alarms"
]
interval: 5s
timeout: 20s
retries: 20
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25-rabbitmq
networks:
- secure
ports:
- 15672:15672
restart: always
postgres:
container_name: postgres
environment:
- POSTGRES_PASSWORD=${postgres_POSTGRES_PASSWORD}
healthcheck:
test:
[
"CMD",
"pg_isready",
"-h",
"localhost",
"-U",
"postgres"
]
interval: 5s
timeout: 20s
retries: 20
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25-postgres
networks:
- secure
restart: always
volumes:
- pgdata:/var/lib/postgresql/data
s3:
command: server /data --console-address ":9001"
container_name: s3
environment:
- MINIO_ROOT_USER=${s3_MINIO_ROOT_USER}
- MINIO_ROOT_PASSWORD=${s3_MINIO_ROOT_PASSWORD}
- MINIO_SERVER_URL=${s3_MINIO_SERVER_URL}
healthcheck:
test:
[
"CMD",
"curl",
"-fq",
"http://localhost:9000/minio/health/live"
]
interval: 5s
timeout: 20s
retries: 3
image: minio/minio:RELEASE.2023-10-25T06-33-25Z
networks:
- secure
ports:
- "9000:9000"
- "9001:9001"
restart: always
volumes:
- s3data:/data
## data ingest pipeline
download:
command: sda-download
container_name: download
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
s3:
condition: service_healthy
environment:
- DB_PASSWORD=${download_DB_PASSWORD}
- DB_USER=${download_DB_USER}
- OIDC_CONFIGURATION_URL=http://${DOCKERHOST:-dockerhost}:8080/oidc/.well-known/openid-configuration
- ARCHIVE_TYPE=s3seekable
extra_hosts:
- ${DOCKERHOST:-dockerhost}:host-gateway
image: harbor.nbis.se/gdi/sda-download:20240415
networks:
- public
- secure
ports:
- 8443:8443
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
- ${ISS_FILEPATH}:/iss.json
- shared:/shared
finalize:
command: sda-finalize
container_name: finalize
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
rabbitmq:
condition: service_healthy
s3:
condition: service_healthy
environment:
- BROKER_PASSWORD=${finalize_BROKER_PASSWORD}
- BROKER_QUEUE=${finalize_BROKER_QUEUE}
- BROKER_ROUTINGKEY=${finalize_BROKER_ROUTINGKEY}
- BROKER_USER=${finalize_BROKER_USER}
- DB_PASSWORD=${finalize_DB_PASSWORD}
- DB_USER=${finalize_DB_USER}
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- secure
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
ingest:
command: sda-ingest
container_name: ingest
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
rabbitmq:
condition: service_healthy
s3:
condition: service_healthy
environment:
- BROKER_PASSWORD=${ingest_BROKER_PASSWORD}
- BROKER_QUEUE=${ingest_BROKER_QUEUE}
- BROKER_ROUTINGKEY=${ingest_BROKER_ROUTINGKEY}
- BROKER_USER=${ingest_BROKER_USER}
- DB_PASSWORD=${ingest_DB_PASSWORD}
- DB_USER=${ingest_DB_USER}
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- secure
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
- shared:/shared
mapper:
command: sda-mapper
container_name: mapper
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
rabbitmq:
condition: service_healthy
s3:
condition: service_healthy
environment:
- BROKER_PASSWORD=${mapper_BROKER_PASSWORD}
- BROKER_QUEUE=${mapper_BROKER_QUEUE}
- BROKER_USER=${mapper_BROKER_USER}
- DB_PASSWORD=${mapper_DB_PASSWORD}
- DB_USER=${mapper_DB_USER}
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- secure
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
verify:
command: sda-verify
container_name: verify
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
rabbitmq:
condition: service_healthy
s3:
condition: service_healthy
environment:
- BROKER_PASSWORD=${verify_BROKER_PASSWORD}
- BROKER_QUEUE=${verify_BROKER_QUEUE}
- BROKER_ROUTINGKEY=${verify_BROKER_ROUTINGKEY}
- BROKER_USER=${verify_BROKER_USER}
- DB_PASSWORD=${verify_DB_PASSWORD}
- DB_USER=${verify_DB_USER}
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- secure
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
- shared:/shared
s3inbox:
command: sda-s3inbox
container_name: s3inbox
depends_on:
credentials:
condition: service_completed_successfully
postgres:
condition: service_healthy
rabbitmq:
condition: service_healthy
s3:
condition: service_healthy
environment:
- BROKER_PASSWORD=${s3inbox_BROKER_PASSWORD}
- BROKER_ROUTINGKEY=${s3inbox_BROKER_ROUTINGKEY}
- BROKER_USER=${s3inbox_BROKER_USER}
- DB_PASSWORD=${s3inbox_DB_PASSWORD}
- DB_USER=${s3inbox_DB_USER}
- SERVER_JWTPUBKEYURL=http://${DOCKERHOST:-dockerhost}:8080/oidc/jwk
extra_hosts:
- ${DOCKERHOST:-dockerhost}:host-gateway
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- public
- secure
ports:
- "8000:8000"
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
- shared:/shared
reencrypt:
command: sda-reencrypt
container_name: reencrypt
depends_on:
credentials:
condition: service_completed_successfully
image: ghcr.io/neicnordic/sensitive-data-archive:v0.3.25
networks:
- secure
restart: always
volumes:
- ${CONFIG_FILEPATH}:/config.yaml
- shared:/shared
- cacert:/cacert
volumes:
cacert:
pgdata:
shared:
s3data:
networks:
public:
secure: