refactor: set transfair log to info

fix: make transfair reach the internal blaze stores
fix: support mode without ttp
2025-06-16 21:50:14 +02:00 · 2025-02-07 10:30:43 +01:00 · 2025-02-07 09:17:17 +01:00 · 2025-02-07 09:17:07 +01:00 · 2025-02-06 15:43:37 +01:00 · 2025-01-24 09:23:08 +00:00
29 changed files with 212 additions and 102 deletions
--- a/README.md
+++ b/README.md
@ -254,6 +254,8 @@ sh bridgehead uninstall

 ## Site-specific configuration

+[How to Change Config Access Token](docs/update-access-token.md)
+
 ### HTTPS Access

 Even within your internal network, the Bridgehead enforces HTTPS for all services. During the installation, a self-signed, long-lived certificate was created for you. To increase security, you can simply replace the files under `/etc/bridgehead/traefik-tls` with ones from established certification authorities such as [Let's Encrypt](https://letsencrypt.org) or [DFN-AAI](https://www.aai.dfn.de).
--- a/bbmri/docker-compose.yml
+++ b/bbmri/docker-compose.yml
@ -4,7 +4,7 @@ version: "3.7"

 services:
  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-bbmri-blaze
    environment:
      BASE_URL: "http://bridgehead-bbmri-blaze:8080"
--- a/bbmri/modules/eric-compose.yml
+++ b/bbmri/modules/eric-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  focus-eric:
-    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
+    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-bbmri
    container_name: bridgehead-focus-eric
    environment:
      API_KEY: ${ERIC_FOCUS_BEAM_SECRET_SHORT}
--- a/bbmri/modules/gbn-compose.yml
+++ b/bbmri/modules/gbn-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  focus-gbn:
-    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
+    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-bbmri
    container_name: bridgehead-focus-gbn
    environment:
      API_KEY: ${GBN_FOCUS_BEAM_SECRET_SHORT}
--- a/bbmri/vars
+++ b/bbmri/vars
@ -1,22 +1,3 @@
-BROKER_ID=broker-test.bbmri-test.samply.de
-BROKER_URL=https://${BROKER_ID}
-PROXY_ID=${SITE_ID}.${BROKER_ID}
-PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem
-PLATFORM=bbmri
-
-BROKER_URL_FOR_PREREQ=$BROKER_URL
-
-OIDC_USER_GROUP="BBMRI_$(capitalize_first_letter ${SITE_ID})"
-OIDC_ADMIN_GROUP="BBMRI_$(capitalize_first_letter ${SITE_ID})_Verwalter"
-OIDC_PUBLIC_CLIENT_ID="BBMRI_${SITE_ID}-public"
-# Use "test-realm-01" for testing
-OIDC_REALM="${OIDC_REALM:-test-realm-01}"
-OIDC_URL="https://login.verbis.dkfz.de"
-OIDC_ISSUER_URL="${OIDC_URL}/realms/${OIDC_REALM}"
-OIDC_GROUP_CLAIM="groups"
-
-POSTGRES_TAG=15.6-alpine
-
 # Makes sense for all European Biobanks
 : ${ENABLE_ERIC:=true}

@ -32,13 +13,6 @@ do
    source $module
 done

-log DEBUG "sourcing ccp/modules/exporter-setup.sh"
-source ccp/modules/exporter-setup.sh
-
-log DEBUG "sourcing ccp/modules/teiler-setup.sh"
-source ccp/modules/teiler-setup.sh
-
-
 SUPPORT_EMAIL=$ERIC_SUPPORT_EMAIL
 BROKER_URL_FOR_PREREQ="${ERIC_BROKER_URL:-$GBN_BROKER_URL}"

--- a/3
+++ b/3
@ -106,8 +106,7 @@ case "$ACTION" in
 		loadVars
 		hc_send log "Bridgehead $PROJECT startup: Checking requirements ..."
 		checkRequirements
-		# NOTE: for testing only, we will need to properly setup secret sync if we want to use this code
-		# sync_secrets
+		sync_secrets
 		hc_send log "Bridgehead $PROJECT startup: Requirements checked out. Now starting bridgehead ..."
 		exec $COMPOSE -p $PROJECT -f ./minimal/docker-compose.yml -f ./$PROJECT/docker-compose.yml $OVERRIDE up --abort-on-container-exit
 		;;
--- a/cce/docker-compose.yml
+++ b/cce/docker-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-cce-blaze
    environment:
      BASE_URL: "http://bridgehead-cce-blaze:8080"
--- a/ccp/docker-compose.yml
+++ b/ccp/docker-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-ccp-blaze
    environment:
      BASE_URL: "http://bridgehead-ccp-blaze:8080"
@ -22,7 +22,7 @@ services:
      - "traefik.http.routers.blaze_ccp.tls=true"

  focus:
-    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
+    image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-dktk
    container_name: bridgehead-focus
    environment:
      API_KEY: ${FOCUS_BEAM_SECRET_SHORT}
@ -33,6 +33,7 @@ services:
      RETRY_COUNT: ${FOCUS_RETRY_COUNT}
      EPSILON: 0.28
      QUERIES_TO_CACHE: '/queries_to_cache.conf'
+      ENDPOINT_TYPE: ${FOCUS_ENDPOINT_TYPE:-blaze}
    volumes:
      - /srv/docker/bridgehead/ccp/queries_to_cache.conf:/queries_to_cache.conf
    depends_on:
@ -58,7 +59,6 @@ services:
      - /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
      - /srv/docker/bridgehead/ccp/root.crt.pem:/conf/root.crt.pem:ro

-
 volumes:
  blaze-data:

--- a/ccp/modules/blaze-secondary-compose.yml
+++ b/ccp/modules/blaze-secondary-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  blaze-secondary:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-ccp-blaze-secondary
    environment:
      BASE_URL: "http://bridgehead-ccp-blaze-secondary:8080"
--- a/ccp/modules/exporter-compose.yml
+++ b/ccp/modules/exporter-compose.yml
@ -3,7 +3,7 @@ version: "3.7"
 services:
  exporter:
    image: docker.verbis.dkfz.de/ccp/dktk-exporter:latest
-    container_name: bridgehead-${PLATFORM}-exporter
+    container_name: bridgehead-ccp-exporter
    environment:
      JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
      LOG_LEVEL: "INFO"
@ -12,39 +12,39 @@ services:
      EXPORTER_DB_USER: "exporter"
      EXPORTER_DB_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
      EXPORTER_DB_URL: "jdbc:postgresql://exporter-db:5432/exporter"
-      HTTP_RELATIVE_PATH: "/${PLATFORM}-exporter"
+      HTTP_RELATIVE_PATH: "/ccp-exporter"
      SITE: "${SITE_ID}"
      HTTP_SERVLET_REQUEST_SCHEME: "https"
      OPAL_PASSWORD: "${EXPORTER_OPAL_PASSWORD}"
    labels:
      - "traefik.enable=true"
-      - "traefik.http.routers.exporter_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-exporter`)"
-      - "traefik.http.services.exporter_${PLATFORM}.loadbalancer.server.port=8092"
-      - "traefik.http.routers.exporter_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.exporter_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-exporter"
-      - "traefik.http.routers.exporter_${PLATFORM}.middlewares=exporter_${PLATFORM}_strip"
+      - "traefik.http.routers.exporter_ccp.rule=PathPrefix(`/ccp-exporter`)"
+      - "traefik.http.services.exporter_ccp.loadbalancer.server.port=8092"
+      - "traefik.http.routers.exporter_ccp.tls=true"
+      - "traefik.http.middlewares.exporter_ccp_strip.stripprefix.prefixes=/ccp-exporter"
+      - "traefik.http.routers.exporter_ccp.middlewares=exporter_ccp_strip"
    volumes:
-      - "/var/cache/bridgehead/${PLATFORM}/exporter-files:/app/exporter-files/output"
+      - "/var/cache/bridgehead/ccp/exporter-files:/app/exporter-files/output"

  exporter-db:
    image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG}
-    container_name: bridgehead-${PLATFORM}-exporter-db
+    container_name: bridgehead-ccp-exporter-db
    environment:
      POSTGRES_USER: "exporter"
      POSTGRES_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
      POSTGRES_DB: "exporter"
    volumes:
      # Consider removing this volume once we find a solution to save Lens-queries to be executed in the explorer.
-      - "/var/cache/bridgehead/${PLATFORM}/exporter-db:/var/lib/postgresql/data"
+      - "/var/cache/bridgehead/ccp/exporter-db:/var/lib/postgresql/data"

  reporter:
    image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest
-    container_name: bridgehead-${PLATFORM}-reporter
+    container_name: bridgehead-ccp-reporter
    environment:
      JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
      LOG_LEVEL: "INFO"
      CROSS_ORIGINS: "https://${HOST}"
-      HTTP_RELATIVE_PATH: "/${PLATFORM}-reporter"
+      HTTP_RELATIVE_PATH: "/ccp-reporter"
      SITE: "${SITE_ID}"
      EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
      EXPORTER_URL: "http://exporter:8092"
@ -57,11 +57,16 @@ services:
    # There is a risk that the bridgehead restarts, losing the already created export.

    volumes:
-      - "/var/cache/bridgehead/${PLATFORM}/reporter-files:/app/reports"
+      - "/var/cache/bridgehead/ccp/reporter-files:/app/reports"
    labels:
      - "traefik.enable=true"
-      - "traefik.http.routers.reporter_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-reporter`)"
-      - "traefik.http.services.reporter_${PLATFORM}.loadbalancer.server.port=8095"
-      - "traefik.http.routers.reporter_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.reporter_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-reporter"
-      - "traefik.http.routers.reporter_${PLATFORM}.middlewares=reporter_${PLATFORM}_strip"
+      - "traefik.http.routers.reporter_ccp.rule=PathPrefix(`/ccp-reporter`)"
+      - "traefik.http.services.reporter_ccp.loadbalancer.server.port=8095"
+      - "traefik.http.routers.reporter_ccp.tls=true"
+      - "traefik.http.middlewares.reporter_ccp_strip.stripprefix.prefixes=/ccp-reporter"
+      - "traefik.http.routers.reporter_ccp.middlewares=reporter_ccp_strip"
+
+  focus:
+    environment:
+      EXPORTER_URL: "http://exporter:8092"
+      EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
--- a/ccp/modules/exporter-setup.sh
+++ b/ccp/modules/exporter-setup.sh
@ -2,7 +2,7 @@

 if [ "$ENABLE_EXPORTER" == true ]; then
  log INFO "Exporter setup detected -- will start Exporter service."
-  OVERRIDE+=" -f ./ccp/modules/exporter-compose.yml"
+  OVERRIDE+=" -f ./$PROJECT/modules/exporter-compose.yml"
  EXPORTER_DB_PASSWORD="$(echo \"This is a salt string to generate one consistent password for the exporter. It is not required to be secret.\" | sha1sum | openssl pkeyutl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)"
  EXPORTER_API_KEY="$(echo \"This is a salt string to generate one consistent API KEY for the exporter. It is not required to be secret.\" | sha1sum | openssl pkeyutl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 64)"
 fi
--- a/ccp/modules/fhir2sql-compose.yml
+++ b/ccp/modules/fhir2sql-compose.yml
@ -23,3 +23,7 @@ services:
      POSTGRES_DB: "dashboard"
    volumes:
      - "/var/cache/bridgehead/ccp/dashboard-db:/var/lib/postgresql/data"
+
+  focus:
+    environment:
+      POSTGRES_CONNECTION_STRING: "postgresql://dashboard:${DASHBOARD_DB_PASSWORD}@dashboard-db/dashboard"
--- a/ccp/modules/fhir2sql-setup.sh
+++ b/ccp/modules/fhir2sql-setup.sh
@ -4,4 +4,5 @@ if [ "$ENABLE_FHIR2SQL" == true ]; then
  log INFO "Dashboard setup detected -- will start Dashboard backend and FHIR2SQL service."
  OVERRIDE+=" -f ./$PROJECT/modules/fhir2sql-compose.yml"
  DASHBOARD_DB_PASSWORD="$(generate_simple_password 'fhir2sql')"
+  FOCUS_ENDPOINT_TYPE="blaze-and-sql"
 fi
--- a/ccp/modules/id-management-compose.yml
+++ b/ccp/modules/id-management-compose.yml
@ -101,5 +101,12 @@ services:
      forward_proxy:
        condition: service_healthy

+  ccp-patient-project-identificator:
+    image: docker.verbis.dkfz.de/cache/samply/ccp-patient-project-identificator
+    container_name: bridgehead-ccp-patient-project-identificator
+    environment:
+      MAINZELLISTE_APIKEY: ${IDMANAGER_LOCAL_PATIENTLIST_APIKEY}
+      SITE_NAME: ${IDMANAGEMENT_FRIENDLY_ID}
+
 volumes:
  patientlist-db-data:
--- a/ccp/modules/nngm-compose.yml
+++ b/ccp/modules/nngm-compose.yml
@ -12,7 +12,6 @@ services:
      CTS_API_KEY: ${NNGM_CTS_APIKEY}
      CRYPT_KEY: ${NNGM_CRYPTKEY}
      #CTS_MAGICPL_SITE: ${SITE_ID}TODO
-    restart: always
    labels:
      - "traefik.enable=true"
      - "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
--- a/ccp/modules/obds2fhir-rest-compose.yml
+++ b/ccp/modules/obds2fhir-rest-compose.yml
@ -10,7 +10,6 @@ services:
      SALT: ${LOCAL_SALT}
      KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
      MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
-    restart: always
    labels:
      - "traefik.enable=true"
      - "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
--- a/ccp/modules/teiler-compose.yml
+++ b/ccp/modules/teiler-compose.yml
@ -7,31 +7,30 @@ services:
    container_name: bridgehead-teiler-orchestrator
    labels:
      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler`)"
-      - "traefik.http.services.teiler_orchestrator_${PLATFORM}.loadbalancer.server.port=9000"
-      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_orchestrator_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler"
-      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.middlewares=teiler_orchestrator_${PLATFORM}_strip"
+      - "traefik.http.routers.teiler_orchestrator_ccp.rule=PathPrefix(`/ccp-teiler`)"
+      - "traefik.http.services.teiler_orchestrator_ccp.loadbalancer.server.port=9000"
+      - "traefik.http.routers.teiler_orchestrator_ccp.tls=true"
+      - "traefik.http.middlewares.teiler_orchestrator_ccp_strip.stripprefix.prefixes=/ccp-teiler"
+      - "traefik.http.routers.teiler_orchestrator_ccp.middlewares=teiler_orchestrator_ccp_strip"
    environment:
-      TEILER_BACKEND_URL: "https://${HOST}/${PLATFORM}-teiler-backend"
-      TEILER_DASHBOARD_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard"
+      TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
+      TEILER_DASHBOARD_URL: "https://${HOST}/ccp-teiler-dashboard"
      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}"
-      HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
+      HTTP_RELATIVE_PATH: "/ccp-teiler"

  teiler-dashboard:
-    #image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
-    image:  docker.verbis.dkfz.de/ccp/samply/teiler-dashboard:bbmri
+    image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
    container_name: bridgehead-teiler-dashboard
    labels:
      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler-dashboard`)"
-      - "traefik.http.services.teiler_dashboard_${PLATFORM}.loadbalancer.server.port=80"
-      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_dashboard_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler-dashboard"
-      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.middlewares=teiler_dashboard_${PLATFORM}_strip"
+      - "traefik.http.routers.teiler_dashboard_ccp.rule=PathPrefix(`/ccp-teiler-dashboard`)"
+      - "traefik.http.services.teiler_dashboard_ccp.loadbalancer.server.port=80"
+      - "traefik.http.routers.teiler_dashboard_ccp.tls=true"
+      - "traefik.http.middlewares.teiler_dashboard_ccp_strip.stripprefix.prefixes=/ccp-teiler-dashboard"
+      - "traefik.http.routers.teiler_dashboard_ccp.middlewares=teiler_dashboard_ccp_strip"
    environment:
      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
-      TEILER_BACKEND_URL: "https://${HOST}/${PLATFORM}-teiler-backend"
+      TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
      OIDC_URL: "${OIDC_URL}"
      OIDC_REALM: "${OIDC_REALM}"
      OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}"
@ -41,42 +40,42 @@ services:
      TEILER_ADMIN_PHONE: "${OPERATOR_PHONE}"
      TEILER_PROJECT: "${PROJECT}"
      EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/${PLATFORM}-teiler"
-      TEILER_DASHBOARD_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler-dashboard"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
+      TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler"
+      TEILER_DASHBOARD_HTTP_RELATIVE_PATH: "/ccp-teiler-dashboard"
+      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler"
      TEILER_USER: "${OIDC_USER_GROUP}"
      TEILER_ADMIN: "${OIDC_ADMIN_GROUP}"
-      REPORTER_DEFAULT_TEMPLATE_ID: "${PLATFORM}-qb"
-      EXPORTER_DEFAULT_TEMPLATE_ID: "${PLATFORM}"
+      REPORTER_DEFAULT_TEMPLATE_ID: "ccp-qb"
+      EXPORTER_DEFAULT_TEMPLATE_ID: "ccp"


  teiler-backend:
-    image: docker.verbis.dkfz.de/ccp/${PROJECT}-teiler-backend:latest
+    image: docker.verbis.dkfz.de/ccp/dktk-teiler-backend:latest
    container_name: bridgehead-teiler-backend
    labels:
      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_backend_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler-backend`)"
-      - "traefik.http.services.teiler_backend_${PLATFORM}.loadbalancer.server.port=8085"
-      - "traefik.http.routers.teiler_backend_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_backend_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler-backend"
-      - "traefik.http.routers.teiler_backend_${PLATFORM}.middlewares=teiler_backend_${PLATFORM}_strip"
+      - "traefik.http.routers.teiler_backend_ccp.rule=PathPrefix(`/ccp-teiler-backend`)"
+      - "traefik.http.services.teiler_backend_ccp.loadbalancer.server.port=8085"
+      - "traefik.http.routers.teiler_backend_ccp.tls=true"
+      - "traefik.http.middlewares.teiler_backend_ccp_strip.stripprefix.prefixes=/ccp-teiler-backend"
+      - "traefik.http.routers.teiler_backend_ccp.middlewares=teiler_backend_ccp_strip"
    environment:
      LOG_LEVEL: "INFO"
      APPLICATION_PORT: "8085"
      APPLICATION_ADDRESS: "${HOST}"
      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
-      CONFIG_ENV_VAR_PATH: "/run/secrets/project-conf"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/${PLATFORM}-teiler"
-      TEILER_DASHBOARD_DE_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard/de"
-      TEILER_DASHBOARD_EN_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard/en"
+      CONFIG_ENV_VAR_PATH: "/run/secrets/ccp.conf"
+      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler"
+      TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler"
+      TEILER_DASHBOARD_DE_URL: "https://${HOST}/ccp-teiler-dashboard/de"
+      TEILER_DASHBOARD_EN_URL: "https://${HOST}/ccp-teiler-dashboard/en"
      CENTRAX_URL: "${CENTRAXX_URL}"
      HTTP_PROXY: "http://forward_proxy:3128"
      ENABLE_MTBA: "${ENABLE_MTBA}"
      ENABLE_DATASHIELD: "${ENABLE_DATASHIELD}"
    secrets:
-      - project-conf
+      - ccp.conf

 secrets:
-  project-conf:
-    file: "/etc/bridgehead/${PROJECT}.conf"
+  ccp.conf:
+    file: /etc/bridgehead/ccp.conf
--- a/ccp/modules/teiler-setup.sh
+++ b/ccp/modules/teiler-setup.sh
@ -2,7 +2,7 @@

 if [ "$ENABLE_TEILER" == true ];then
  log INFO "Teiler setup detected -- will start Teiler services."
-  OVERRIDE+=" -f ./ccp/modules/teiler-compose.yml"
+  OVERRIDE+=" -f ./$PROJECT/modules/teiler-compose.yml"
  TEILER_DEFAULT_LANGUAGE=DE
  TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,}
  add_public_oidc_redirect_url "/ccp-teiler/*"
--- a/ccp/vars
+++ b/ccp/vars
@ -5,7 +5,6 @@ FOCUS_BEAM_SECRET_SHORT="$(cat /proc/sys/kernel/random/uuid | sed 's/[-]//g' | h
 FOCUS_RETRY_COUNT=${FOCUS_RETRY_COUNT:-64}
 SUPPORT_EMAIL=support-ccp@dkfz-heidelberg.de
 PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem
-PLATFORM=ccp

 BROKER_URL_FOR_PREREQ=$BROKER_URL

--- a/dhki/docker-compose.yml
+++ b/dhki/docker-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-dhki-blaze
    environment:
      BASE_URL: "http://bridgehead-dhki-blaze:8080"
--- a/dhki/vars
+++ b/dhki/vars
@ -18,3 +18,11 @@ done

 idManagementSetup
 obds2fhirRestSetup
+
+for module in modules/*.sh
+do
+    log DEBUG "sourcing $module"
+    source $module
+done
+
+transfairSetup
--- a/docs/update-access-token.md
+++ b/docs/update-access-token.md
@ -0,0 +1,42 @@
+## How to Change Config Access Token
+
+### 1. Generate a New Access Token
+
+1. Go to your Git configuration repository provider, it might be either [git.verbis.dkfz.de](https://git.verbis.dkfz.de) or [gitlab.bbmri-eric.eu](https://gitlab.bbmri-eric.eu).  
+2. Navigate to the configuration repository for your site.  
+3. Go to **Settings → Access Tokens** to check if your Access Token is valid or expired.  
+   - **If expired**, create a new Access Token.  
+4. Configure the new Access Token with the following settings:  
+   - **Expiration date**: One year from today, minus one day.  
+   - **Role**: Developer.  
+   - **Scope**: Only `read_repository`.  
+5. Save the newly generated Access Token in a secure location.  
+
+---
+
+### 2. Replace the Old Access Token
+
+1. Navigate to `/etc/bridgehead` in your system.  
+2. Run the following command to retrieve the current Git remote URL:  
+   ```bash
+   git remote get-url origin
+   ```
+   Example output:  
+   ```
+   https://name40dkfz-heidelberg.de:<old_access_token>@git.verbis.dkfz.de/bbmri-bridgehead-configs/test.git
+   ```
+3. Replace `<old_access_token>` with your new Access Token in the URL.  
+4. Set the updated URL using the following command:  
+   ```bash
+   git remote set-url origin https://name40dkfz-heidelberg.de:<new_access_token>@git.verbis.dkfz.de/bbmri-bridgehead-configs/test.git
+   
+   ```
+
+5. Start the Bridgehead update service by running:  
+   ```bash
+   systemctl start bridgehead-update@<project>
+   ```
+6. View the output to ensure the update process is successful:  
+   ```bash
+   journalctl -u bridgehead-update@<project> -f
+   ```
--- a/itcc/docker-compose.yml
+++ b/itcc/docker-compose.yml
@ -2,7 +2,7 @@ version: "3.7"

 services:
  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-itcc-blaze
    environment:
      BASE_URL: "http://bridgehead-itcc-blaze:8080"
--- a/kr/docker-compose.yml
+++ b/kr/docker-compose.yml
@ -6,7 +6,7 @@ services:
      replicas: 0 #deactivate landing page

  blaze:
-    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
    container_name: bridgehead-kr-blaze
    environment:
      BASE_URL: "http://bridgehead-kr-blaze:8080"
--- a/kr/modules/obds2fhir-rest-compose.yml
+++ b/kr/modules/obds2fhir-rest-compose.yml
@ -10,7 +10,6 @@ services:
      SALT: ${LOCAL_SALT}
      KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
      MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
-    restart: always
    labels:
      - "traefik.enable=true"
      - "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
--- a/lib/update-bridgehead.sh
+++ b/lib/update-bridgehead.sh
@ -58,7 +58,8 @@ for DIR in /etc/bridgehead $(pwd); do
    OUT=$(retry 5 git -c http.proxy=$HTTPS_PROXY_FULL_URL -c https.proxy=$HTTPS_PROXY_FULL_URL -C $DIR fetch 2>&1 && retry 5 git -c http.proxy=$HTTPS_PROXY_FULL_URL -c https.proxy=$HTTPS_PROXY_FULL_URL -C $DIR pull 2>&1)
  fi
  if [ $? -ne 0 ]; then
-    report_error log "Unable to update git $DIR: $OUT"
+    OUT_SAN=$(echo $OUT | sed -E 's|://[^:]+:[^@]+@|://credentials@|g')
+    report_error log "Unable to update git $DIR: $OUT_SAN"
  fi

  new_git_hash="$(git -C $DIR rev-parse --verify HEAD)"
--- a/minimal/modules/nngm-compose.yml
+++ b/minimal/modules/nngm-compose.yml
@ -11,7 +11,6 @@ services:
      CTS_API_KEY: ${NNGM_CTS_APIKEY}
      CRYPT_KEY: ${NNGM_CRYPTKEY}
      #CTS_MAGICPL_SITE: ${SITE_ID}TODO
-    restart: always
    labels:
      - "traefik.enable=true"
      - "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
--- a/modules/transfair-compose.yml
+++ b/modules/transfair-compose.yml
@ -0,0 +1,51 @@
+
+services:
+  transfair:
+    image: docker.verbis.dkfz.de/cache/samply/transfair:latest
+    container_name: bridgehead-transfair
+    environment:
+      # NOTE: Those 3 variables need only to be passed if their set, otherwise transfair will complain about empty url values
+      - INSTITUTE_TTP_URL
+      - INSTITUTE_TTP_API_KEY
+      - PROJECT_ID_SYSTEM
+      - FHIR_REQUEST_URL=${FHIR_REQUEST_URL}
+      - FHIR_INPUT_URL=${FHIR_INPUT_URL}
+      - FHIR_OUTPUT_URL=${FHIR_OUTPUT_URL:-http://blaze:8080}
+      - FHIR_REQUEST_CREDENTIALS=${FHIR_REQUEST_CREDENTIALS}
+      - FHIR_INPUT_CREDENTIALS=${FHIR_INPUT_CREDENTIALS}
+      - FHIR_OUTPUT_CREDENTIALS=${FHIR_OUTPUT_CREDENTIALS}
+      - EXCHANGE_ID_SYSTEM=${EXCHANGE_ID_SYSTEM:-SESSION_ID}
+      - DATABASE_URL=sqlite://transfair/data_requests.sql?mode=rwc
+      - RUST_LOG=${RUST_LOG:-info}
+    volumes:
+      - /var/cache/bridgehead/${PROJECT}/transfair:/transfair
+
+  transfair-input-blaze:
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    container_name: bridgehead-transfair-input-blaze
+    environment:
+      BASE_URL: "http://bridgehead-transfair-input-blaze:8080"
+      JAVA_TOOL_OPTIONS: "-Xmx1024m"
+      DB_BLOCK_CACHE_SIZE: 1024
+      CQL_EXPR_CACHE_SIZE: 8
+      ENFORCE_REFERENTIAL_INTEGRITY: "false"
+    volumes:
+      - "transfair-input-blaze-data:/app/data"
+    profiles: ["transfair-input-blaze"]
+
+  transfair-request-blaze:
+    image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
+    container_name: bridgehead-transfair-requests-blaze
+    environment:
+      BASE_URL: "http://bridgehead-transfair-requests-blaze:8080"
+      JAVA_TOOL_OPTIONS: "-Xmx1024m"
+      DB_BLOCK_CACHE_SIZE: 1024
+      CQL_EXPR_CACHE_SIZE: 8
+      ENFORCE_REFERENTIAL_INTEGRITY: "false"
+    volumes:
+      - "transfair-request-blaze-data:/app/data"
+    profiles: ["transfair-request-blaze"]
+
+volumes:
+  transfair-input-blaze-data:
+  transfair-request-blaze-data:
--- a/modules/transfair-setup.sh
+++ b/modules/transfair-setup.sh
@ -0,0 +1,22 @@
+#!/bin/bash -e
+
+function transfairSetup() {
+    if [[ -n "$INSTITUTE_TTP_URL" || -n "$EXCHANGE_ID_SYSTEM" ]]; then
+        echo "Starting transfair."
+	    OVERRIDE+=" -f ./modules/transfair-compose.yml"
+	    if [ -n "$FHIR_INPUT_URL" ]; then
+		    log INFO "TransFAIR input fhir store set to external $FHIR_INPUT_URL"
+	    else
+		    log INFO "TransFAIR input fhir store not set writing to internal blaze"
+		    FHIR_INPUT_URL="http://transfair-input-blaze:8080"
+		    OVERRIDE+=" --profile transfair-input-blaze"
+	    fi
+	    if [ -n "$FHIR_REQUEST_URL" ]; then
+		    log INFO "TransFAIR request fhir store set to external $FHIR_REQUEST_URL"
+	    else
+		    log INFO "TransFAIR request fhir store not set writing to internal blaze"
+		    FHIR_REQUEST_URL="http://transfair-requests-blaze:8080"
+		    OVERRIDE+=" --profile transfair-request-blaze"
+	    fi
+    fi
+}
Author	SHA1	Message	Date
Torben Brenner	c568a56651	refactor: set transfair log to info	2025-02-07 10:30:43 +01:00
Torben Brenner	8384143387	fix: make transfair reach the internal blaze stores	2025-02-07 09:17:17 +01:00
Torben Brenner	8fe73a8123	fix: support mode without ttp	2025-02-07 09:17:07 +01:00
Torben Brenner	bca63e82a9	fix: don't use return in transfairSetup For some reason the return not only exits transfairSetup, but also the bridgehead script	2025-02-06 15:43:37 +01:00
janskiba	fa0d9fb8b4	restrict additional blaze memory usage	2025-01-24 09:23:08 +00:00
janskiba	139fcecabe	redo transfair setup	2025-01-23 13:27:42 +00:00
janskiba	2058a7a5c9	update image url	2025-01-23 12:06:43 +00:00
janskiba	47364f999e	wip: routine connector	2025-01-21 13:55:08 +00:00
patrickskowronekdkfz	910289079b	docs: documentation for changing your configuration repository access token (#256 )	2025-01-21 09:35:25 +01:00
patrickskowronekdkfz	1003cd73cf	fix: changed ccp_ppi to use IDMANAGEMENT_FRIENDLY_ID instead of SITE_NAME (#259 )	2025-01-21 09:30:20 +01:00
patrickskowronekdkfz	3d1105b97c	Update: Blaze to version 0.31 (#260 )	2025-01-21 09:28:47 +01:00
Jan	5c28e704d2	fix: remove `restart: always` in compose files (#261 )	2025-01-21 09:27:27 +01:00
patrickskowronekdkfz	e3510363ad	fix: remove credentials from git remote, if update fails (#253 ) Signed-off-by: Patrick Skowronek <patrick.skowronek@dkfz-heidelberg.de>	2024-12-10 17:18:07 +01:00
Enola Knezevic	45aefd24e5	renamed exporter API key to EXPORTER_API_KEY (#252 )	2024-12-06 11:27:38 +01:00
patrickskowronekdkfz	122ff16bb1	fix: use verbis cache image instead of docker-hub (#250 )	2024-11-12 09:58:17 +01:00
djuarezgf	967e45624e	Add exporter configuration to focus (#249 )	2024-11-05 15:46:00 +01:00
Tobias Kussel	8cd5b93b95	Merge pull request #237 from samply/feat/ccp-ppi Feat/ccp ppi	2024-11-05 13:59:01 +01:00
Jan	52c24ee6fa	fix(fhir2sql): add the postgres connection string to focus (#245 )	2024-11-05 13:34:36 +01:00
davidmscholz	26712d3567	feat: add and set FOCUS_ENDPOINT_TYPE to support fhir2sql (#244 ) * add and set FOCUS_ENDPOINT_TYPE Co-authored-by: Jan <59206115+Threated@users.noreply.github.com> --------- Co-authored-by: davidmscholz <david.scholz@dkfz-heidelberg.de> Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>	2024-10-30 15:21:15 +01:00
Enola Knezevic	eea17c3478	fix: remove invalid beam-proxy tag and add it to focus instead (#242 )	2024-10-22 16:48:48 +02:00
Pierre Delpy	cf5230963c	feat: add focus tags in ccp and bbmri (#240 ) Co-authored-by: p.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>	2024-10-21 11:00:01 +02:00
Patrick Skowronek	23981062bb	Move ppi to id-management	2024-10-10 13:27:24 +02:00
Patrick Skowronek	8e7fe6851e	fix: use correct mainzelliste api key	2024-10-10 13:11:43 +02:00
Patrick Skowronek	760d599b7c	Add CCP-PPI	2024-10-10 12:56:36 +02:00