Adapt changes in teiler, exporter and reporter for CCP

README.md

@@ -24,9 +24,6 @@ This repository is the starting point for any information and tools you will nee
     - [BBMRI-ERIC Directory entry needed](#bbmri-eric-directory-entry-needed)
     - [Directory sync tool](#directory-sync-tool)
     - [Loading data](#loading-data)
-    - [Teiler (Frontend)](#teiler-frontend)
-    - [Data Exporter Service](#data-exporter-service)
-      - [Data Quality Report](#data-quality-report)
 4. [Things you should know](#things-you-should-know)
     - [Auto-Updates](#auto-updates)
     - [Auto-Backups](#auto-backups)
@@ -382,37 +379,6 @@ Normally, you will need to build your own ETL to feed the Bridgehead. However, t
 
 You can find the profiles for generating FHIR in [Simplifier](https://simplifier.net/bbmri.de/~resources?category=Profile).
 
-### Teiler (Frontend)
-
-Teiler is the web-based frontend of the Bridgehead, providing access to its various internal, and external services and components.   
-To learn how to integrate your custom module into Teiler, please refer to https://github.com/samply/teiler-dashboard.
-- To activate Teiler, set the following environment variable in your `<PROJECT>.conf` file:  
-
-```bash
-ENABLE_TEILER=true
-```
-
-### Data Exporter Service
-
-The Exporter is a dedicated service for extracting and exporting Bridgehead data in (tabular) formats such as Excel, CSV, Opal, JSON, XML, ...  
-- To enable the Exporter service, set the following environment variable in your `<PROJECT>.conf` file:  
-
-```bash
-ENABLE_EXPORTER=true
-```
-
-#### Data Quality Report
-To assess the quality and plausibility of your imported data, the Reporter component is pre-configured to generate Excel reports with data quality metrics and statistical analyses. Reporter is part of the Exporter and can be enabled by setting the same environment variable in your `<PROJECT>.conf` file:
-```bash
-ENABLE_EXPORTER=true
-```
-
-For convenience, it's recommended to enable the Teiler web frontend alongside the Exporter to access export and quality control features via a web interface: set the following environment varibles in your `<PROJECT>.conf` file:
-```bash
-ENABLE_TEILER=true
-ENABLE_EXPORTER=true
-```
-
 ## Things you should know
 
 ### Auto-Updates

bbmri/modules/eric.acc.root.crt.pem

@@ -1,20 +1,20 @@
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------END CERTIFICATE-----
+-----END CERTIFICATE-----

bbmri/modules/exporter-compose.yml

@@ -1,86 +0,0 @@
-version: "3.7"
-
-services:
-  exporter:
-    image: docker.verbis.dkfz.de/ccp/dktk-exporter:latest
-    container_name: bridgehead-bbmri-exporter
-    environment:
-      JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
-      LOG_LEVEL: "INFO"
-      EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
-      CROSS_ORIGINS: "https://${HOST}"
-      EXPORTER_DB_USER: "exporter"
-      EXPORTER_DB_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
-      EXPORTER_DB_URL: "jdbc:postgresql://exporter-db:5432/exporter"
-      HTTP_RELATIVE_PATH: "/bbmri-exporter"
-      SITE: "${SITE_ID}"
-      HTTP_SERVLET_REQUEST_SCHEME: "https"
-      OPAL_PASSWORD: "${EXPORTER_OPAL_PASSWORD}"
-    labels:
-      - "traefik.enable=true"
-      - "traefik.http.routers.exporter_bbmri.rule=PathPrefix(`/bbmri-exporter`)"
-      - "traefik.http.services.exporter_bbmri.loadbalancer.server.port=8092"
-      - "traefik.http.routers.exporter_bbmri.tls=true"
-      - "traefik.http.middlewares.exporter_bbmri_strip.stripprefix.prefixes=/bbmri-exporter"
-      - "traefik.http.routers.exporter_bbmri.middlewares=exporter_bbmri_strip"
-      # Main router
-      - "traefik.http.routers.exporter_bbmri.priority=20"
-
-      # API router
-      - "traefik.http.routers.exporter_bbmri_api.middlewares=exporter_bbmri_strip,exporter_auth"
-      - "traefik.http.routers.exporter_bbmri_api.rule=PathRegexp(`/bbmri-exporter/.+`)"
-      - "traefik.http.routers.exporter_bbmri_api.tls=true"
-      - "traefik.http.routers.exporter_bbmri_api.priority=25"
-
-      # Shared middlewares
-      - "traefik.http.middlewares.exporter_auth.basicauth.users=${EXPORTER_USER}"
-
-    volumes:
-      - "/var/cache/bridgehead/bbmri/exporter-files:/app/exporter-files/output"
-
-  exporter-db:
-    image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG}
-    container_name: bridgehead-bbmri-exporter-db
-    environment:
-      POSTGRES_USER: "exporter"
-      POSTGRES_PASSWORD: "${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/bbmri/exporter-db:/var/lib/postgresql/data"
-
-  reporter:
-    image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest
-    container_name: bridgehead-bbmri-reporter
-    environment:
-      JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
-      LOG_LEVEL: "INFO"
-      CROSS_ORIGINS: "https://${HOST}"
-      HTTP_RELATIVE_PATH: "/bbmri-reporter"
-      SITE: "${SITE_ID}"
-      EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
-      EXPORTER_URL: "http://exporter:8092"
-      LOG_FHIR_VALIDATION: "false"
-      HTTP_SERVLET_REQUEST_SCHEME: "https"
-
-    # In this initial development state of the bridgehead, we are trying to have so many volumes as possible.
-    # However, in the first executions in the bbmri sites, this volume seems to be very important. A report is
-    # a process that can take several hours, because it depends on the exporter.
-    # There is a risk that the bridgehead restarts, losing the already created export.
-
-    volumes:
-      - "/var/cache/bridgehead/bbmri/reporter-files:/app/reports"
-    labels:
-      - "traefik.enable=true"
-      - "traefik.http.routers.reporter_bbmri.rule=PathPrefix(`/bbmri-reporter`)"
-      - "traefik.http.services.reporter_bbmri.loadbalancer.server.port=8095"
-      - "traefik.http.routers.reporter_bbmri.tls=true"
-      - "traefik.http.middlewares.reporter_bbmri_strip.stripprefix.prefixes=/bbmri-reporter"
-      - "traefik.http.routers.reporter_bbmri.middlewares=reporter_bbmri_strip"
-      - "traefik.http.routers.reporter_bbmri.priority=20"
-
-      - "traefik.http.routers.reporter_bbmri_api.middlewares=reporter_bbmri_strip,exporter_auth"
-      - "traefik.http.routers.reporter_bbmri_api.rule=PathRegexp(`/bbmri-reporter/.+`)"
-      - "traefik.http.routers.reporter_bbmri_api.tls=true"
-      - "traefik.http.routers.reporter_bbmri_api.priority=25"
-

bbmri/modules/exporter-setup.sh

@@ -1,8 +0,0 @@
-#!/bin/bash -e
-
-if [ "$ENABLE_EXPORTER" == true ]; then
-  log INFO "Exporter setup detected -- will start Exporter service."
-  OVERRIDE+=" -f ./$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

bbmri/modules/exporter.md

@@ -1,15 +0,0 @@
-# Exporter and Reporter
-
-
-## Exporter
-The exporter is a REST API that exports the data of the different databases of the bridgehead in a set of tables.
-It can accept different output formats as CSV, Excel, JSON or XML. It can also export data into Opal.
-
-## Exporter-DB
-It is a database to save queries for its execution in the exporter. 
-The exporter manages also the different executions of the same query in through the database.
-
-## Reporter
-This component is a plugin of the exporter that allows to create more complex Excel reports described in templates.
-It is compatible with different template engines as Groovy, Thymeleaf,...
-It is perfect to generate a document as our traditional CCP quality report.

bbmri/modules/teiler-compose.yml

@@ -1,70 +0,0 @@
-version: "3.7"
-
-services:
-
-  teiler-orchestrator:
-    image: docker.verbis.dkfz.de/cache/samply/teiler-orchestrator:latest
-    container_name: bridgehead-teiler-orchestrator
-    labels:
-      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_orchestrator_bbmri.rule=PathPrefix(`/bbmri-teiler`)"
-      - "traefik.http.services.teiler_orchestrator_bbmri.loadbalancer.server.port=9000"
-      - "traefik.http.routers.teiler_orchestrator_bbmri.tls=true"
-      - "traefik.http.middlewares.teiler_orchestrator_bbmri_strip.stripprefix.prefixes=/bbmri-teiler"
-      - "traefik.http.routers.teiler_orchestrator_bbmri.middlewares=teiler_orchestrator_bbmri_strip"
-    environment:
-      TEILER_BACKEND_URL: "https://${HOST}/bbmri-teiler-backend"
-      TEILER_DASHBOARD_URL: "https://${HOST}/bbmri-teiler-dashboard"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}"
-      HTTP_RELATIVE_PATH: "/bbmri-teiler"
-
-  teiler-dashboard:
-    image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
-    container_name: bridgehead-teiler-dashboard
-    labels:
-      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_dashboard_bbmri.rule=PathPrefix(`/bbmri-teiler-dashboard`)"
-      - "traefik.http.services.teiler_dashboard_bbmri.loadbalancer.server.port=80"
-      - "traefik.http.routers.teiler_dashboard_bbmri.tls=true"
-      - "traefik.http.middlewares.teiler_dashboard_bbmri_strip.stripprefix.prefixes=/bbmri-teiler-dashboard"
-      - "traefik.http.routers.teiler_dashboard_bbmri.middlewares=teiler_dashboard_bbmri_strip"
-    environment:
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
-      TEILER_BACKEND_URL: "https://${HOST}/bbmri-teiler-backend"
-      TEILER_DASHBOARD_URL: "https://${HOST}/bbmri-teiler-dashboard"
-      OIDC_URL: "${OIDC_URL}"
-      OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}"
-      OIDC_TOKEN_GROUP: "${OIDC_GROUP_CLAIM}"
-      TEILER_ADMIN_NAME: "${OPERATOR_FIRST_NAME} ${OPERATOR_LAST_NAME}"
-      TEILER_ADMIN_EMAIL: "${OPERATOR_EMAIL}"
-      TEILER_ADMIN_PHONE: "${OPERATOR_PHONE}"
-      TEILER_PROJECT: "${PROJECT}"
-      EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/bbmri-teiler"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/bbmri-teiler"
-      TEILER_USER: "${OIDC_USER_GROUP}"
-      TEILER_ADMIN: "${OIDC_ADMIN_GROUP}"
-      REPORTER_DEFAULT_TEMPLATE_ID: "bbmri-qb"
-      EXPORTER_DEFAULT_TEMPLATE_ID: "bbmri"
-
-
-  teiler-backend:
-    image: docker.verbis.dkfz.de/ccp/bbmri-teiler-backend:latest
-    container_name: bridgehead-teiler-backend
-    labels:
-      - "traefik.enable=true"
-      - "traefik.http.routers.teiler_backend_bbmri.rule=PathPrefix(`/bbmri-teiler-backend`)"
-      - "traefik.http.services.teiler_backend_bbmri.loadbalancer.server.port=8085"
-      - "traefik.http.routers.teiler_backend_bbmri.tls=true"
-      - "traefik.http.middlewares.teiler_backend_bbmri_strip.stripprefix.prefixes=/bbmri-teiler-backend"
-      - "traefik.http.routers.teiler_backend_bbmri.middlewares=teiler_backend_bbmri_strip"
-    environment:
-      LOG_LEVEL: "INFO"
-      APPLICATION_PORT: "8085"
-      APPLICATION_ADDRESS: "${HOST}"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/bbmri-teiler"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/bbmri-teiler"
-      TEILER_DASHBOARD_DE_URL: "https://${HOST}/bbmri-teiler-dashboard/de"
-      TEILER_DASHBOARD_EN_URL: "https://${HOST}/bbmri-teiler-dashboard/en"
-      HTTP_PROXY: "http://forward_proxy:3128"

bbmri/modules/teiler-setup.sh

@@ -1,8 +0,0 @@
-#!/bin/bash -e
-
-if [ "$ENABLE_TEILER" == true ];then
-  log INFO "Teiler setup detected -- will start Teiler services."
-  OVERRIDE+=" -f ./$PROJECT/modules/teiler-compose.yml"
-  TEILER_DEFAULT_LANGUAGE=EN
-  TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,}
-fi

bbmri/modules/teiler.md

@@ -1,19 +0,0 @@
-# Teiler
-This module orchestrates the different microfrontends of the bridgehead as a single page application.  
-
-## Teiler Orchestrator
-Single SPA component that consists on the root HTML site of the single page application and a javascript code that
-gets the information about the microfrontend calling the teiler backend and is responsible for registering them. With the
-resulting mapping, it can initialize, mount and unmount the required microfrontends on the fly. 
-
-The microfrontends run independently in different containers and can be based on different frameworks (Angular, Vue, React,...)
-This microfrontends can run as single alone but need an extension with Single-SPA (https://single-spa.js.org/docs/ecosystem).
-There are also available three templates (Angular, Vue, React) to be directly extended to be used directly in the teiler.
-
-## Teiler Dashboard
-It consists on the main dashboard and a set of embedded services.
-### Login
-user and password in ccp.local.conf
-
-## Teiler Backend
-In this component, the microfrontends are configured.

bbmri/vars

@@ -1,9 +1,25 @@
+DEFAULT_LANGUAGE=EN
+DEFAULT_LANGUAGE_LOWER_CASE=${DEFAULT_LANGUAGE,,}
+
 BROKER_ID=broker-test.bbmri-test.samply.de
 BROKER_URL=https://${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}
 
@@ -11,6 +27,7 @@ BROKER_URL_FOR_PREREQ=$BROKER_URL
 : ${ENABLE_GBN:=false}
 
 FOCUS_RETRY_COUNT=${FOCUS_RETRY_COUNT:-64}
+PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem
 
 for module in $PROJECT/modules/*.sh
 do
@@ -18,6 +35,13 @@ 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}"
 

bridgehead

@@ -116,6 +116,8 @@ 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
+		# TODO: Adapt it for BBMRI (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

ccp/modules/datashield-compose.yml

@@ -45,6 +45,7 @@ services:
       OPAL_PRIVATE_KEY: "/run/secrets/opal-key.pem"
       OPAL_CERTIFICATE: "/run/secrets/opal-cert.pem"
       OIDC_URL: "${OIDC_URL}"
+      OIDC_REALM: "${OIDC_REALM}"
       OIDC_CLIENT_ID: "${OIDC_PRIVATE_CLIENT_ID}"
       OIDC_CLIENT_SECRET: "${OIDC_CLIENT_SECRET}"
       OIDC_ADMIN_GROUP: "${OIDC_ADMIN_GROUP}"
@@ -140,7 +141,7 @@ services:
       --client-id="${OIDC_PRIVATE_CLIENT_ID}"
       --client-secret="${OIDC_CLIENT_SECRET}"
       --redirect-url="https://${HOST}${OAUTH2_CALLBACK}"
-      --oidc-issuer-url="${OIDC_URL}"
+      --oidc-issuer-url="${OIDC_ISSUER_URL}"
       --scope="openid email profile"
       --code-challenge-method="S256"
       --skip-provider-button=true

ccp/modules/exporter-auth-compose.yml

@@ -0,0 +1,30 @@
+version: "3.7"
+
+services:
+  exporter:
+    labels:
+      # Main router
+      - "traefik.http.routers.exporter_${PLATFORM}.priority=20"
+
+      # API router
+      - "traefik.http.routers.exporter_${PLATFORM}_api.middlewares=exporter_${PLATFORM}_strip,exporter_auth"
+      - "traefik.http.routers.exporter_${PLATFORM}_api.rule=PathRegexp(`/${PLATFORM}-exporter/.+`)"
+      - "traefik.http.routers.exporter_${PLATFORM}_api.tls=true"
+      - "traefik.http.routers.exporter_${PLATFORM}_api.priority=25"
+
+      # Shared middlewares
+      - "traefik.http.middlewares.exporter_auth.basicauth.users=${EXPORTER_USER}"
+
+  reporter:
+    labels:
+      - "traefik.http.routers.reporter_${PLATFORM}.priority=20"
+
+      #- "traefik.http.routers.reporter_${PLATFORM}.middlewares=reporter_${PLATFORM}_strip,exporter_auth"
+      - "traefik.http.routers.reporter_${PLATFORM}_api.middlewares=reporter_${PLATFORM}_strip,exporter_auth"
+      - "traefik.http.routers.reporter_${PLATFORM}_api.rule=PathRegexp(`/${PLATFORM}-reporter/.+`)"
+      - "traefik.http.routers.reporter_${PLATFORM}_api.tls=true"
+      - "traefik.http.routers.reporter_${PLATFORM}_api.priority=25"
+      #- "traefik.http.middlewares.reporter_auth.basicauth.users=${EXPORTER_USER}"
+
+
+

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-ccp-exporter
+    container_name: bridgehead-${PLATFORM}-exporter
     environment:
       JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
       LOG_LEVEL: "INFO"
@@ -12,39 +12,39 @@ services:
       EXPORTER_DB_USER: "exporter"
       EXPORTER_DB_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
       EXPORTER_DB_URL: "jdbc:postgresql://exporter-db:5432/exporter"
-      HTTP_RELATIVE_PATH: "/ccp-exporter"
+      HTTP_RELATIVE_PATH: "/${PLATFORM}-exporter"
       SITE: "${SITE_ID}"
       HTTP_SERVLET_REQUEST_SCHEME: "https"
       OPAL_PASSWORD: "${EXPORTER_OPAL_PASSWORD}"
     labels:
       - "traefik.enable=true"
-      - "traefik.http.routers.exporter_ccp.rule=PathPrefix(`/ccp-exporter`)"
+      - "traefik.http.routers.exporter_${PLATFORM}.rule=Path(`/${PLATFORM}-exporter/`)"
-      - "traefik.http.services.exporter_ccp.loadbalancer.server.port=8092"
+      - "traefik.http.services.exporter_${PLATFORM}.loadbalancer.server.port=8092"
-      - "traefik.http.routers.exporter_ccp.tls=true"
+      - "traefik.http.routers.exporter_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.exporter_ccp_strip.stripprefix.prefixes=/ccp-exporter"
+      - "traefik.http.middlewares.exporter_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-exporter"
-      - "traefik.http.routers.exporter_ccp.middlewares=exporter_ccp_strip"
+      - "traefik.http.routers.exporter_${PLATFORM}.middlewares=exporter_${PLATFORM}_strip"
     volumes:
-      - "/var/cache/bridgehead/ccp/exporter-files:/app/exporter-files/output"
+      - "/var/cache/bridgehead/${PLATFORM}/exporter-files:/app/exporter-files/output"
 
   exporter-db:
     image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG}
-    container_name: bridgehead-ccp-exporter-db
+    container_name: bridgehead-${PLATFORM}-exporter-db
     environment:
       POSTGRES_USER: "exporter"
       POSTGRES_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
       POSTGRES_DB: "exporter"
     volumes:
       # Consider removing this volume once we find a solution to save Lens-queries to be executed in the explorer.
-      - "/var/cache/bridgehead/ccp/exporter-db:/var/lib/postgresql/data"
+      - "/var/cache/bridgehead/${PLATFORM}/exporter-db:/var/lib/postgresql/data"
 
   reporter:
     image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest
-    container_name: bridgehead-ccp-reporter
+    container_name: bridgehead-${PLATFORM}-reporter
     environment:
       JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
       LOG_LEVEL: "INFO"
       CROSS_ORIGINS: "https://${HOST}"
-      HTTP_RELATIVE_PATH: "/ccp-reporter"
+      HTTP_RELATIVE_PATH: "/${PLATFORM}-reporter"
       SITE: "${SITE_ID}"
       EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
       EXPORTER_URL: "http://exporter:8092"
@@ -57,16 +57,17 @@ 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/${PLATFORM}/reporter-files:/app/reports"
     labels:
       - "traefik.enable=true"
-      - "traefik.http.routers.reporter_ccp.rule=PathPrefix(`/ccp-reporter`)"
+      - "traefik.http.routers.reporter_${PLATFORM}.rule=Path(`/${PLATFORM}-reporter`)"
-      - "traefik.http.services.reporter_ccp.loadbalancer.server.port=8095"
+      - "traefik.http.services.reporter_${PLATFORM}.loadbalancer.server.port=8095"
-      - "traefik.http.routers.reporter_ccp.tls=true"
+      - "traefik.http.routers.reporter_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.reporter_ccp_strip.stripprefix.prefixes=/ccp-reporter"
+      - "traefik.http.middlewares.reporter_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-reporter"
-      - "traefik.http.routers.reporter_ccp.middlewares=reporter_ccp_strip"
+      - "traefik.http.routers.reporter_${PLATFORM}.middlewares=reporter_${PLATFORM}_strip"
 
-  focus:
+
-    environment:
+#  focus:
-      EXPORTER_URL: "http://exporter:8092"
+#    environment:
-      EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
+#      EXPORTER_URL: "http://exporter:8092"
+#      EXPORTER_API_KEY: "${EXPORTER_API_KEY}"

ccp/modules/exporter-setup.sh

@@ -2,7 +2,10 @@
 
 if [ "$ENABLE_EXPORTER" == true ]; then
   log INFO "Exporter setup detected -- will start Exporter service."
-  OVERRIDE+=" -f ./$PROJECT/modules/exporter-compose.yml"
+  OVERRIDE+=" -f ./ccp/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)"
+  if [ "$EXPORTER_USER" == true ]; then
+    OVERRIDE+=" -f ./ccp/modules/exporter-auth-compose.yml"
+  fi
 fi

ccp/modules/mtba-compose.yml

@@ -23,6 +23,7 @@ services:
       OIDC_ADMIN_GROUP: "${OIDC_ADMIN_GROUP}"
       OIDC_CLIENT_ID: "${OIDC_PRIVATE_CLIENT_ID}"
       OIDC_CLIENT_SECRET: "${OIDC_CLIENT_SECRET}"
+      OIDC_REALM: "${OIDC_REALM}"
       OIDC_URL: "${OIDC_URL}"
 
     labels:

ccp/modules/teiler-compose.yml

@@ -7,32 +7,33 @@ services:
     container_name: bridgehead-teiler-orchestrator
     labels:
       - "traefik.enable=true"
-      - "traefik.http.routers.teiler_orchestrator_ccp.rule=PathPrefix(`/ccp-teiler`)"
+      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler`)"
-      - "traefik.http.services.teiler_orchestrator_ccp.loadbalancer.server.port=9000"
+      - "traefik.http.services.teiler_orchestrator_${PLATFORM}.loadbalancer.server.port=9000"
-      - "traefik.http.routers.teiler_orchestrator_ccp.tls=true"
+      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_orchestrator_ccp_strip.stripprefix.prefixes=/ccp-teiler"
+      - "traefik.http.middlewares.teiler_orchestrator_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler"
-      - "traefik.http.routers.teiler_orchestrator_ccp.middlewares=teiler_orchestrator_ccp_strip"
+      - "traefik.http.routers.teiler_orchestrator_${PLATFORM}.middlewares=teiler_orchestrator_${PLATFORM}_strip"
     environment:
-      TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
+      TEILER_BACKEND_URL: "https://${HOST}/${PLATFORM}-teiler-backend"
-      TEILER_DASHBOARD_URL: "https://${HOST}/ccp-teiler-dashboard"
+      TEILER_DASHBOARD_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE_LOWER_CASE}"
-      HTTP_RELATIVE_PATH: "/ccp-teiler"
+      HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
 
   teiler-dashboard:
     image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
     container_name: bridgehead-teiler-dashboard
     labels:
       - "traefik.enable=true"
-      - "traefik.http.routers.teiler_dashboard_ccp.rule=PathPrefix(`/ccp-teiler-dashboard`)"
+      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler-dashboard`)"
-      - "traefik.http.services.teiler_dashboard_ccp.loadbalancer.server.port=80"
+      - "traefik.http.services.teiler_dashboard_${PLATFORM}.loadbalancer.server.port=80"
-      - "traefik.http.routers.teiler_dashboard_ccp.tls=true"
+      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_dashboard_ccp_strip.stripprefix.prefixes=/ccp-teiler-dashboard"
+      - "traefik.http.middlewares.teiler_dashboard_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler-dashboard"
-      - "traefik.http.routers.teiler_dashboard_ccp.middlewares=teiler_dashboard_ccp_strip"
+      - "traefik.http.routers.teiler_dashboard_${PLATFORM}.middlewares=teiler_dashboard_${PLATFORM}_strip"
     environment:
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE}"
-      TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
+      TEILER_BACKEND_URL: "https://${HOST}/${PLATFORM}-teiler-backend"
-      TEILER_DASHBOARD_URL: "https://${HOST}/ccp-teiler-dashboard"
+      TEILER_DASHBOARD_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard"
       OIDC_URL: "${OIDC_URL}"
+      OIDC_REALM: "${OIDC_REALM}"
       OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}"
       OIDC_TOKEN_GROUP: "${OIDC_GROUP_CLAIM}"
       TEILER_ADMIN_NAME: "${OPERATOR_FIRST_NAME} ${OPERATOR_LAST_NAME}"
@@ -40,33 +41,33 @@ services:
       TEILER_ADMIN_PHONE: "${OPERATOR_PHONE}"
       TEILER_PROJECT: "${PROJECT}"
       EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler"
+      TEILER_ORCHESTRATOR_URL: "https://${HOST}/${PLATFORM}-teiler"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler"
+      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
       TEILER_USER: "${OIDC_USER_GROUP}"
       TEILER_ADMIN: "${OIDC_ADMIN_GROUP}"
-      REPORTER_DEFAULT_TEMPLATE_ID: "ccp-qb"
+      REPORTER_DEFAULT_TEMPLATE_ID: "${PLATFORM}-qb"
-      EXPORTER_DEFAULT_TEMPLATE_ID: "ccp"
+      EXPORTER_DEFAULT_TEMPLATE_ID: "${PLATFORM}"
 
 
   teiler-backend:
-    image: docker.verbis.dkfz.de/ccp/dktk-teiler-backend:latest
+    image: docker.verbis.dkfz.de/ccp/${PROJECT}-teiler-backend:latest
     container_name: bridgehead-teiler-backend
     labels:
       - "traefik.enable=true"
-      - "traefik.http.routers.teiler_backend_ccp.rule=PathPrefix(`/ccp-teiler-backend`)"
+      - "traefik.http.routers.teiler_backend_${PLATFORM}.rule=PathPrefix(`/${PLATFORM}-teiler-backend`)"
-      - "traefik.http.services.teiler_backend_ccp.loadbalancer.server.port=8085"
+      - "traefik.http.services.teiler_backend_${PLATFORM}.loadbalancer.server.port=8085"
-      - "traefik.http.routers.teiler_backend_ccp.tls=true"
+      - "traefik.http.routers.teiler_backend_${PLATFORM}.tls=true"
-      - "traefik.http.middlewares.teiler_backend_ccp_strip.stripprefix.prefixes=/ccp-teiler-backend"
+      - "traefik.http.middlewares.teiler_backend_${PLATFORM}_strip.stripprefix.prefixes=/${PLATFORM}-teiler-backend"
-      - "traefik.http.routers.teiler_backend_ccp.middlewares=teiler_backend_ccp_strip"
+      - "traefik.http.routers.teiler_backend_${PLATFORM}.middlewares=teiler_backend_${PLATFORM}_strip"
     environment:
       LOG_LEVEL: "INFO"
       APPLICATION_PORT: "8085"
       APPLICATION_ADDRESS: "${HOST}"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE}"
-      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler"
+      TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
-      TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler"
+      TEILER_ORCHESTRATOR_URL: "https://${HOST}/${PLATFORM}-teiler"
-      TEILER_DASHBOARD_DE_URL: "https://${HOST}/ccp-teiler-dashboard/de"
+      TEILER_DASHBOARD_DE_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard/de"
-      TEILER_DASHBOARD_EN_URL: "https://${HOST}/ccp-teiler-dashboard/en"
+      TEILER_DASHBOARD_EN_URL: "https://${HOST}/${PLATFORM}-teiler-dashboard/en"
       HTTP_PROXY: "http://forward_proxy:3128"
       ENABLE_MTBA: "${ENABLE_MTBA}"
       ENABLE_DATASHIELD: "${ENABLE_DATASHIELD}"

ccp/modules/teiler-setup.sh

@@ -2,8 +2,6 @@
 
 if [ "$ENABLE_TEILER" == true ];then
   log INFO "Teiler setup detected -- will start Teiler services."
-  OVERRIDE+=" -f ./$PROJECT/modules/teiler-compose.yml"
+  OVERRIDE+=" -f ./ccp/modules/teiler-compose.yml"
-  TEILER_DEFAULT_LANGUAGE=DE
-  TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,}
   add_public_oidc_redirect_url "/ccp-teiler/*"
 fi

ccp/vars

@@ -1,3 +1,6 @@
+DEFAULT_LANGUAGE=EN
+DEFAULT_LANGUAGE_LOWER_CASE=${DEFAULT_LANGUAGE,,}
+
 BROKER_ID=broker.ccp-it.dktk.dkfz.de
 BROKER_URL=https://${BROKER_ID}
 PROXY_ID=${SITE_ID}.${BROKER_ID}
@@ -5,6 +8,7 @@ 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
 
@@ -12,9 +16,14 @@ OIDC_USER_GROUP="DKTK_CCP_$(capitalize_first_letter ${SITE_ID})"
 OIDC_ADMIN_GROUP="DKTK_CCP_$(capitalize_first_letter ${SITE_ID})_Verwalter"
 OIDC_PRIVATE_CLIENT_ID=${SITE_ID}-private
 OIDC_PUBLIC_CLIENT_ID=${SITE_ID}-public
-OIDC_URL="https://login.verbis.dkfz.de/realms/test-realm-01"
+# Use "test-realm-01" for testing
+OIDC_REALM="${OIDC_REALM:-master}"
+OIDC_URL="https://login.verbis.dkfz.de"
+OIDC_ISSUER_URL="${OIDC_URL}/realms/${OIDC_REALM}"
 OIDC_GROUP_CLAIM="groups"
 
+POSTGRES_TAG=15.6-alpine
+
 for module in $PROJECT/modules/*.sh
 do
     log DEBUG "sourcing $module"
@@ -26,6 +35,7 @@ mtbaSetup
 obds2fhirRestSetup
 blazeSecondarySetup
 
+
 for module in modules/*.sh
 do
     log DEBUG "sourcing $module"

dhki/vars

@@ -8,6 +8,8 @@ PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem
 
 BROKER_URL_FOR_PREREQ=$BROKER_URL
 
+POSTGRES_TAG=15.6-alpine
+
 for module in ccp/modules/*.sh
 do
     log DEBUG "sourcing $module"

kr/modules/teiler-compose.yml

@@ -15,7 +15,7 @@ services:
     environment:
       TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
       TEILER_DASHBOARD_URL: "https://${HOST}/ccp-teiler-dashboard"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE_LOWER_CASE}"
       HTTP_RELATIVE_PATH: "/ccp-teiler"
 
   teiler-dashboard:
@@ -29,10 +29,11 @@ services:
       - "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: "${TEILER_DEFAULT_LANGUAGE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE}"
       TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend"
       TEILER_DASHBOARD_URL: "https://${HOST}/ccp-teiler-dashboard"
       OIDC_URL: "${OIDC_URL}"
+      OIDC_REALM: "${OIDC_REALM}"
       OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}"
       OIDC_TOKEN_GROUP: "${OIDC_GROUP_CLAIM}"
       TEILER_ADMIN_NAME: "${OPERATOR_FIRST_NAME} ${OPERATOR_LAST_NAME}"
@@ -62,7 +63,7 @@ services:
       LOG_LEVEL: "INFO"
       APPLICATION_PORT: "8085"
       APPLICATION_ADDRESS: "${HOST}"
-      DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
+      DEFAULT_LANGUAGE: "${DEFAULT_LANGUAGE}"
       CONFIG_ENV_VAR_PATH: "/run/secrets/ccp.conf"
       TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler"
       TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler"

kr/modules/teiler-setup.sh

@@ -3,7 +3,5 @@
 if [ "$ENABLE_TEILER" == true ];then
   log INFO "Teiler setup detected -- will start Teiler services."
   OVERRIDE+=" -f ./$PROJECT/modules/teiler-compose.yml"
-  TEILER_DEFAULT_LANGUAGE=DE
-  TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,}
   add_public_oidc_redirect_url "/ccp-teiler/*"
 fi

lib/install-bridgehead.sh

@@ -49,12 +49,6 @@ if [ -z "$TRANSFAIR_AUTH" ]; then
   fi
 fi
 
-if [ "$ENABLE_EXPORTER" == "true" ] && [ -z "$EXPORTER_USER" ]; then
-  log "INFO" "Now generating basic auth for the exporter and reporter (see adduser in bridgehead for more information)."
-  generated_passwd="$(cat /proc/sys/kernel/random/uuid | sed 's/[-]//g' | head -c 32)"
-  add_basic_auth_user $PROJECT $generated_passwd "EXPORTER_USER" $PROJECT
-fi
-
 log "INFO" "Registering system units for bridgehead and bridgehead-update"
 cp -v \
     lib/systemd/bridgehead\@.service \

lib/prerequisites.sh

@@ -70,6 +70,7 @@ source "${CONFIG_DIR}${PROJECT}".conf
 source ${PROJECT}/vars
 
 if [ "${PROJECT}" != "minimal" ]; then
+#if false; then # TODO: Adapt it for BBMRI
   set +e
   SERVERTIME="$(https_proxy=$HTTPS_PROXY_FULL_URL curl -m 5 -s -I $BROKER_URL_FOR_PREREQ 2>&1 | grep -i -e '^Date: ' | sed -e 's/^Date: //i')"
   RET=$?

minimal/docker-compose.yml

@@ -10,7 +10,7 @@ services:
       - --providers.docker=true
       - --providers.docker.exposedbydefault=false
       - --providers.file.directory=/configuration/
-      - --api.dashboard=false
+      - --api.dashboard=true # TODO: Adapt it for CCP
       - --accesslog=true
       - --entrypoints.web.http.redirections.entrypoint.to=websecure
       - --entrypoints.web.http.redirections.entrypoint.scheme=https

versions/acceptance

@@ -1,4 +1,3 @@
 FOCUS_TAG=develop
 BEAM_TAG=develop
-BLAZE_TAG=main
+BLAZE_TAG=main
-POSTGRES_TAG=15.13-alpine

versions/prod

@@ -1,4 +1,3 @@
 FOCUS_TAG=main
 BEAM_TAG=main
-BLAZE_TAG=0.32
+BLAZE_TAG=0.32
-POSTGRES_TAG=15.13-alpine

versions/test

@@ -1,4 +1,3 @@
 FOCUS_TAG=develop
 BEAM_TAG=develop
-BLAZE_TAG=main
+BLAZE_TAG=main
-POSTGRES_TAG=15.13-alpine