Set SELinux labels for bind mounts, replace secrets with bind mounts

ccp/modules/datashield-compose.yml

@@ -35,10 +35,10 @@ services:
       BEAM_SECRET: ${TOKEN_MANAGER_SECRET}
       BEAM_DATASHIELD_PROXY: request-manager
     volumes:
-      - "/var/cache/bridgehead/ccp/opal-metadata-db:/srv" # Opal metadata
-    secrets:
-      - opal-cert.pem
-      - opal-key.pem
+      - "/var/cache/bridgehead/ccp/opal-metadata-db:/srv:Z" # Opal metadata
+      # secrets don't seem to allow us to specify Z/z
+      - /tmp/bridgehead/opal-cert.pem:/run/secrets/opal-cert.pem:z
+      - /tmp/bridgehead/opal-key.pem:/run/secrets/opal-key.pem:Z
 
   opal-db:
     container_name: bridgehead-opal-db
@@ -48,7 +48,7 @@ services:
       POSTGRES_USER: "opal"
       POSTGRES_DB: "opal"
     volumes:
-      - "/var/cache/bridgehead/ccp/opal-db:/var/lib/postgresql/data" # Opal project data (imported from exporter)
+      - "/var/cache/bridgehead/ccp/opal-db:/var/lib/postgresql/data:Z" # Opal project data (imported from exporter)
 
   opal-rserver:
     container_name: bridgehead-opal-rserver
@@ -67,20 +67,14 @@ services:
       DISCOVERY_URL: "./map/central.json"
       LOCAL_TARGETS_FILE: "./map/local.json"
       NO_AUTH: "true"
-    secrets:
-      - opal-cert.pem
     depends_on:
       - beam-proxy
     volumes:
-      - /tmp/bridgehead/opal-map/:/map/:ro
+      - /tmp/bridgehead/opal-map/:/map/:ro,Z
+      # secrets don't seem to allow us to specify Z/z
+      - /tmp/bridgehead/opal-cert.pem:/run/secrets/opal-cert.pem:z
 
   beam-proxy:
     environment:
       APP_datashield-connect_KEY: ${DATASHIELD_CONNECT_SECRET}
       APP_token-manager_KEY: ${TOKEN_MANAGER_SECRET}
-
-secrets:
-  opal-cert.pem:
-    file: /tmp/bridgehead/opal-cert.pem
-  opal-key.pem:
-    file: /tmp/bridgehead/opal-key.pem

ccp/modules/dnpm-compose.yml

@@ -25,7 +25,7 @@ services:
     volumes:
       - /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
       - /etc/bridgehead/dnpm/local_targets.json:/conf/connect_targets.json:ro
-      - /srv/docker/bridgehead/minimal/modules/dnpm-central-targets.json:/conf/central_targets.json:ro
+      - /srv/docker/bridgehead/minimal/modules/dnpm-central-targets.json:/conf/central_targets.json:ro,Z
     labels:
       - "traefik.enable=true"
       - "traefik.http.routers.dnpm-connect.rule=PathPrefix(`/dnpm-connect`)"

ccp/modules/dnpm-node-compose.yml

@@ -12,13 +12,13 @@ services:
       MYSQL_ROOT_HOST: "%"
       MYSQL_ROOT_PASSWORD: ${DNPM_MYSQL_ROOT_PASSWORD}
     volumes:
-      - /var/cache/bridgehead/dnpm/mysql:/var/lib/mysql
+      - /var/cache/bridgehead/dnpm/mysql:/var/lib/mysql:Z
 
   dnpm-authup:
     image: authup/authup:latest
     container_name: bridgehead-dnpm-authup
     volumes:
-      - /var/cache/bridgehead/dnpm/authup:/usr/src/app/writable
+      - /var/cache/bridgehead/dnpm/authup:/usr/src/app/writable:Z
     depends_on:
       dnpm-mysql:
         condition: service_healthy
@@ -68,7 +68,7 @@ services:
       - AUTHUP_URL=robot://system:${DNPM_AUTHUP_SECRET}@http://dnpm-authup:3000
     volumes:
       - /etc/bridgehead/dnpm/config:/dnpm_config
-      - /var/cache/bridgehead/dnpm/backend-data:/dnpm_data
+      - /var/cache/bridgehead/dnpm/backend-data:/dnpm_data:Z
     depends_on:
       dnpm-authup:
         condition: service_healthy

ccp/modules/exporter-compose.yml

@@ -24,7 +24,7 @@ services:
       - "traefik.http.middlewares.exporter_ccp_strip.stripprefix.prefixes=/ccp-exporter"
       - "traefik.http.routers.exporter_ccp.middlewares=exporter_ccp_strip"
     volumes:
-      - "/var/cache/bridgehead/ccp/exporter-files:/app/exporter-files/output"
+      - "/var/cache/bridgehead/ccp/exporter-files:/app/exporter-files/output:z"
 
   exporter-db:
     image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG}
@@ -35,7 +35,7 @@ services:
       POSTGRES_DB: "exporter"
     volumes:
       # Consider removing this volume once we find a solution to save Lens-queries to be executed in the explorer.
-      - "/var/cache/bridgehead/ccp/exporter-db:/var/lib/postgresql/data"
+      - "/var/cache/bridgehead/ccp/exporter-db:/var/lib/postgresql/data:Z"
 
   reporter:
     image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest
@@ -57,7 +57,7 @@ services:
     # There is a risk that the bridgehead restarts, losing the already created export.
 
     volumes:
-      - "/var/cache/bridgehead/ccp/reporter-files:/app/reports"
+      - "/var/cache/bridgehead/ccp/reporter-files:/app/reports:z"
     labels:
       - "traefik.enable=true"
       - "traefik.http.routers.reporter_ccp.rule=PathPrefix(`/ccp-reporter`)"

ccp/modules/fhir2sql-compose.yml

@@ -22,8 +22,8 @@ services:
       POSTGRES_PASSWORD: "${DASHBOARD_DB_PASSWORD}" # Set in dashboard-setup.sh
       POSTGRES_DB: "dashboard"
     volumes:
-      - "/var/cache/bridgehead/ccp/dashboard-db:/var/lib/postgresql/data"
+      - "/var/cache/bridgehead/ccp/dashboard-db:/var/lib/postgresql/data:Z"
 
   focus:
     environment:
-      POSTGRES_CONNECTION_STRING: "postgresql://dashboard:${DASHBOARD_DB_PASSWORD}@dashboard-db/dashboard"
+      POSTGRES_CONNECTION_STRING: "postgresql://dashboard:${DASHBOARD_DB_PASSWORD}@dashboard-db/dashboard"

ccp/modules/id-management-compose.yml

@@ -62,7 +62,7 @@ services:
     volumes:
       - "patientlist-db-data:/var/lib/postgresql/data"
       # NOTE: Add backups here. This is only imported if /var/lib/bridgehead/data/patientlist/ is empty!!!
-      - "/tmp/bridgehead/patientlist/:/docker-entrypoint-initdb.d/"
+      - "/tmp/bridgehead/patientlist/:/docker-entrypoint-initdb.d/:Z"
 
   traefik-forward-auth:
     image: docker.verbis.dkfz.de/cache/oauth2-proxy/oauth2-proxy:latest

ccp/modules/mtba-compose.yml

@@ -32,8 +32,8 @@ services:
       - "traefik.http.routers.mtba_ccp.tls=true"
 
     volumes:
-      - /var/cache/bridgehead/ccp/mtba/input:/app/input
-      - /var/cache/bridgehead/ccp/mtba/persist:/app/persist
+      - /var/cache/bridgehead/ccp/mtba/input:/app/input:z
+      - /var/cache/bridgehead/ccp/mtba/persist:/app/persist:z
 
   # TODO: Include CBioPortal in Deployment ...
   # NOTE: CBioPortal can't load data while the system is running. So after import of data bridgehead needs to be restarted!