Compare commits

...

15 Commits

Author SHA1 Message Date
63274a4aba Test docker image for bbmri teiler-dashboard 2024-10-30 13:04:43 +01:00
183e9c7e69 Test image 2024-10-30 12:04:20 +01:00
cfa0709e17 Added: Exporter and Teiler for BBMRI 2024-10-30 11:58:27 +01:00
77e4cc53c6 fix for the fix of the fix 2024-10-17 15:35:01 +02:00
9cf6538568 some more adjustments 2024-10-17 15:32:10 +02:00
51743b77e7 fix: add postgres tag version 2024-10-17 15:24:27 +02:00
5ea782c90c breakmorestuff: hardcoded ccp in modules 2024-10-17 15:23:04 +02:00
1d3c398370 fix: disable secret sync for now 2024-10-17 15:15:23 +02:00
5a0a804486 fix: added variables for secret sync 2024-10-17 15:08:50 +02:00
a899588f15 feat: enable exporter and teiler module in bbmri 2024-10-17 14:54:47 +02:00
7aaee5e7d5 feat: add auto archiving action (#238)
* feat: add auto archiving action

---------

Co-authored-by: p.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>
Co-authored-by: Martin Lablans <6804500+lablans@users.noreply.github.com>
2024-10-15 13:03:42 +02:00
3312ca8a64 feat: added blaze cql cache (#236) 2024-10-10 14:34:28 +02:00
072ee348fc fix: deactivate landingpage for KR project (#234)
fix: deactivate landingpage for KR project
2024-10-09 09:24:27 +02:00
f328e40963 Merge pull request #233 from samply/fix/id-management-redirection
Allow Usage of Centraxx Interface without login
2024-10-08 13:30:44 +02:00
eb2955872f fix: allow usage of centraxx interface without login
Before this change CentraXX was redirected to the
central login servers then interacting with the id-management
2024-10-01 13:30:23 +02:00
16 changed files with 175 additions and 61 deletions

View File

@ -0,0 +1,39 @@
import os
import requests
from datetime import datetime, timedelta
# Configuration
GITHUB_TOKEN = os.getenv('GITHUB_TOKEN')
REPO = 'samply/bridgehead'
HEADERS = {'Authorization': f'token {GITHUB_TOKEN}', 'Accept': 'application/vnd.github.v3+json'}
API_URL = f'https://api.github.com/repos/{REPO}/branches'
INACTIVE_DAYS = 365
CUTOFF_DATE = datetime.now() - timedelta(days=INACTIVE_DAYS)
# Fetch all branches
def get_branches():
response = requests.get(API_URL, headers=HEADERS)
response.raise_for_status()
return response.json() if response.status_code == 200 else []
# Rename inactive branches
def rename_branch(old_name, new_name):
rename_url = f'https://api.github.com/repos/{REPO}/branches/{old_name}/rename'
response = requests.post(rename_url, json={'new_name': new_name}, headers=HEADERS)
response.raise_for_status()
print(f"Renamed branch {old_name} to {new_name}" if response.status_code == 201 else f"Failed to rename {old_name}: {response.status_code}")
# Check if the branch is inactive
def is_inactive(commit_url):
last_commit_date = requests.get(commit_url, headers=HEADERS).json()['commit']['committer']['date']
return datetime.strptime(last_commit_date, '%Y-%m-%dT%H:%M:%SZ') < CUTOFF_DATE
# Rename inactive branches
def main():
for branch in get_branches():
if is_inactive(branch['commit']['url']):
#rename_branch(branch['name'], f"archived/{branch['name']}")
print(f"[LOG] Branch '{branch['name']}' is inactive and would be renamed to 'archived/{branch['name']}'")
if __name__ == "__main__":
main()

View File

@ -0,0 +1,27 @@
name: Cleanup - Rename Inactive Branches
on:
schedule:
- cron: '0 0 * * 0' # Runs every Sunday at midnight
jobs:
archive-stale-branches:
runs-on: ubuntu-latest
steps:
- name: Checkout Repository
uses: actions/checkout@v2
- name: Set up Python
uses: actions/setup-python@v2
with:
python-version: '3.x'
- name: Install Libraries
run: pip install requests
- name: Run Script to Rename Inactive Branches
run: |
python .github/scripts/rename_inactive_branches.py
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

View File

@ -10,7 +10,8 @@ services:
BASE_URL: "http://bridgehead-bbmri-blaze:8080" BASE_URL: "http://bridgehead-bbmri-blaze:8080"
JAVA_TOOL_OPTIONS: "-Xmx${BLAZE_MEMORY_CAP:-4096}m" JAVA_TOOL_OPTIONS: "-Xmx${BLAZE_MEMORY_CAP:-4096}m"
DB_RESOURCE_CACHE_SIZE: ${BLAZE_RESOURCE_CACHE_CAP:-2500000} DB_RESOURCE_CACHE_SIZE: ${BLAZE_RESOURCE_CACHE_CAP:-2500000}
DB_BLOCK_CACHE_SIZE: $BLAZE_MEMORY_CAP DB_BLOCK_CACHE_SIZE: ${BLAZE_MEMORY_CAP}
CQL_EXPR_CACHE_SIZE: ${BLAZE_CQL_CACHE_CAP:-32}
ENFORCE_REFERENTIAL_INTEGRITY: "false" ENFORCE_REFERENTIAL_INTEGRITY: "false"
volumes: volumes:
- "blaze-data:/app/data" - "blaze-data:/app/data"

View File

@ -1,3 +1,22 @@
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 # Makes sense for all European Biobanks
: ${ENABLE_ERIC:=true} : ${ENABLE_ERIC:=true}
@ -13,6 +32,13 @@ do
source $module source $module
done done
log DEBUG "sourcing ccp/modules/exporter-setup.sh"
source ccp/modules/exporter-setup.sh
log DEBUG "sourcing ccp/modules/teiler-setup.sh"
source ccp/modules/teiler-setup.sh
SUPPORT_EMAIL=$ERIC_SUPPORT_EMAIL SUPPORT_EMAIL=$ERIC_SUPPORT_EMAIL
BROKER_URL_FOR_PREREQ="${ERIC_BROKER_URL:-$GBN_BROKER_URL}" BROKER_URL_FOR_PREREQ="${ERIC_BROKER_URL:-$GBN_BROKER_URL}"

View File

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

View File

@ -8,7 +8,8 @@ services:
BASE_URL: "http://bridgehead-ccp-blaze:8080" BASE_URL: "http://bridgehead-ccp-blaze:8080"
JAVA_TOOL_OPTIONS: "-Xmx${BLAZE_MEMORY_CAP:-4096}m" JAVA_TOOL_OPTIONS: "-Xmx${BLAZE_MEMORY_CAP:-4096}m"
DB_RESOURCE_CACHE_SIZE: ${BLAZE_RESOURCE_CACHE_CAP:-2500000} DB_RESOURCE_CACHE_SIZE: ${BLAZE_RESOURCE_CACHE_CAP:-2500000}
DB_BLOCK_CACHE_SIZE: $BLAZE_MEMORY_CAP DB_BLOCK_CACHE_SIZE: ${BLAZE_MEMORY_CAP}
CQL_EXPR_CACHE_SIZE: ${BLAZE_CQL_CACHE_CAP:-32}
ENFORCE_REFERENTIAL_INTEGRITY: "false" ENFORCE_REFERENTIAL_INTEGRITY: "false"
volumes: volumes:
- "blaze-data:/app/data" - "blaze-data:/app/data"

View File

@ -151,7 +151,7 @@ services:
--pass-access-token=false --pass-access-token=false
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
- "traefik.http.routers.oauth2_proxy.rule=Host(`${HOST}`) && PathPrefix(`/oauth2`)" - "traefik.http.routers.oauth2_proxy.rule=PathPrefix(`/oauth2`)"
- "traefik.http.services.oauth2_proxy.loadbalancer.server.port=4180" - "traefik.http.services.oauth2_proxy.loadbalancer.server.port=4180"
- "traefik.http.routers.oauth2_proxy.tls=true" - "traefik.http.routers.oauth2_proxy.tls=true"
environment: environment:

View File

@ -3,7 +3,7 @@ version: "3.7"
services: services:
exporter: exporter:
image: docker.verbis.dkfz.de/ccp/dktk-exporter:latest image: docker.verbis.dkfz.de/ccp/dktk-exporter:latest
container_name: bridgehead-ccp-exporter container_name: bridgehead-${PLATFORM}-exporter
environment: environment:
JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC" JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
LOG_LEVEL: "INFO" LOG_LEVEL: "INFO"
@ -12,39 +12,39 @@ services:
EXPORTER_DB_USER: "exporter" EXPORTER_DB_USER: "exporter"
EXPORTER_DB_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh EXPORTER_DB_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
EXPORTER_DB_URL: "jdbc:postgresql://exporter-db:5432/exporter" EXPORTER_DB_URL: "jdbc:postgresql://exporter-db:5432/exporter"
HTTP_RELATIVE_PATH: "/ccp-exporter" HTTP_RELATIVE_PATH: "/${PLATFORM}-exporter"
SITE: "${SITE_ID}" SITE: "${SITE_ID}"
HTTP_SERVLET_REQUEST_SCHEME: "https" HTTP_SERVLET_REQUEST_SCHEME: "https"
OPAL_PASSWORD: "${EXPORTER_OPAL_PASSWORD}" OPAL_PASSWORD: "${EXPORTER_OPAL_PASSWORD}"
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
- "traefik.http.routers.exporter_ccp.rule=PathPrefix(`/ccp-exporter`)" - "traefik.http.routers.exporter_${PLATFORM}.rule=PathPrefix(`/${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: volumes:
- "/var/cache/bridgehead/ccp/exporter-files:/app/exporter-files/output" - "/var/cache/bridgehead/${PLATFORM}/exporter-files:/app/exporter-files/output"
exporter-db: exporter-db:
image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG} image: docker.verbis.dkfz.de/cache/postgres:${POSTGRES_TAG}
container_name: bridgehead-ccp-exporter-db container_name: bridgehead-${PLATFORM}-exporter-db
environment: environment:
POSTGRES_USER: "exporter" POSTGRES_USER: "exporter"
POSTGRES_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh POSTGRES_PASSWORD: "${EXPORTER_DB_PASSWORD}" # Set in exporter-setup.sh
POSTGRES_DB: "exporter" POSTGRES_DB: "exporter"
volumes: volumes:
# Consider removing this volume once we find a solution to save Lens-queries to be executed in the explorer. # 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/${PLATFORM}/exporter-db:/var/lib/postgresql/data"
reporter: reporter:
image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest image: docker.verbis.dkfz.de/ccp/dktk-reporter:latest
container_name: bridgehead-ccp-reporter container_name: bridgehead-${PLATFORM}-reporter
environment: environment:
JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC" JAVA_OPTS: "-Xms1G -Xmx8G -XX:+UseG1GC"
LOG_LEVEL: "INFO" LOG_LEVEL: "INFO"
CROSS_ORIGINS: "https://${HOST}" CROSS_ORIGINS: "https://${HOST}"
HTTP_RELATIVE_PATH: "/ccp-reporter" HTTP_RELATIVE_PATH: "/${PLATFORM}-reporter"
SITE: "${SITE_ID}" SITE: "${SITE_ID}"
EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh EXPORTER_API_KEY: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
EXPORTER_URL: "http://exporter:8092" EXPORTER_URL: "http://exporter:8092"
@ -57,11 +57,11 @@ services:
# There is a risk that the bridgehead restarts, losing the already created export. # There is a risk that the bridgehead restarts, losing the already created export.
volumes: volumes:
- "/var/cache/bridgehead/ccp/reporter-files:/app/reports" - "/var/cache/bridgehead/${PLATFORM}/reporter-files:/app/reports"
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
- "traefik.http.routers.reporter_ccp.rule=PathPrefix(`/ccp-reporter`)" - "traefik.http.routers.reporter_${PLATFORM}.rule=PathPrefix(`/${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"

View File

@ -2,7 +2,7 @@
if [ "$ENABLE_EXPORTER" == true ]; then if [ "$ENABLE_EXPORTER" == true ]; then
log INFO "Exporter setup detected -- will start Exporter service." 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/${SITE_ID}.priv.pem | base64 | head -c 30)" EXPORTER_DB_PASSWORD="$(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/${SITE_ID}.priv.pem | base64 | head -c 64)" EXPORTER_API_KEY="$(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 fi

View File

@ -19,10 +19,18 @@ services:
- traefik-forward-auth - traefik-forward-auth
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
# Router with Authentication
- "traefik.http.routers.id-manager.rule=PathPrefix(`/id-manager`)" - "traefik.http.routers.id-manager.rule=PathPrefix(`/id-manager`)"
- "traefik.http.services.id-manager.loadbalancer.server.port=8080"
- "traefik.http.routers.id-manager.tls=true" - "traefik.http.routers.id-manager.tls=true"
- "traefik.http.routers.id-manager.middlewares=traefik-forward-auth-idm" - "traefik.http.routers.id-manager.middlewares=traefik-forward-auth-idm"
- "traefik.http.routers.id-manager.service=id-manager-service"
# Router without Authentication
- "traefik.http.routers.id-manager-compatibility.rule=PathPrefix(`/id-manager/paths/translator/getIds`)"
- "traefik.http.routers.id-manager-compatibility.tls=true"
- "traefik.http.routers.id-manager-compatibility.service=id-manager-service"
# Definition of Service
- "traefik.http.services.id-manager-service.loadbalancer.server.port=8080"
- "traefik.http.services.id-manager-service.loadbalancer.server.scheme=http"
patientlist: patientlist:
image: docker.verbis.dkfz.de/bridgehead/mainzelliste image: docker.verbis.dkfz.de/bridgehead/mainzelliste
@ -57,7 +65,7 @@ services:
- "/tmp/bridgehead/patientlist/:/docker-entrypoint-initdb.d/" - "/tmp/bridgehead/patientlist/:/docker-entrypoint-initdb.d/"
traefik-forward-auth: traefik-forward-auth:
image: docker.verbis.dkfz.de/cache/oauth2-proxy/oauth2-proxy:v7.6.0 image: docker.verbis.dkfz.de/cache/oauth2-proxy/oauth2-proxy:latest
environment: environment:
- http_proxy=http://forward_proxy:3128 - http_proxy=http://forward_proxy:3128
- https_proxy=http://forward_proxy:3128 - https_proxy=http://forward_proxy:3128
@ -67,6 +75,7 @@ services:
- OAUTH2_PROXY_CLIENT_ID=bridgehead-${SITE_ID} - OAUTH2_PROXY_CLIENT_ID=bridgehead-${SITE_ID}
- OAUTH2_PROXY_CLIENT_SECRET=${IDMANAGER_AUTH_CLIENT_SECRET} - OAUTH2_PROXY_CLIENT_SECRET=${IDMANAGER_AUTH_CLIENT_SECRET}
- OAUTH2_PROXY_COOKIE_SECRET=${IDMANAGER_AUTH_COOKIE_SECRET} - OAUTH2_PROXY_COOKIE_SECRET=${IDMANAGER_AUTH_COOKIE_SECRET}
- OAUTH2_PROXY_COOKIE_NAME=_BRIDGEHEAD_oauth2_idm
- OAUTH2_PROXY_COOKIE_DOMAINS=.${HOST} - OAUTH2_PROXY_COOKIE_DOMAINS=.${HOST}
- OAUTH2_PROXY_HTTP_ADDRESS=:4180 - OAUTH2_PROXY_HTTP_ADDRESS=:4180
- OAUTH2_PROXY_REVERSE_PROXY=true - OAUTH2_PROXY_REVERSE_PROXY=true

View File

@ -7,30 +7,31 @@ services:
container_name: bridgehead-teiler-orchestrator container_name: bridgehead-teiler-orchestrator
labels: labels:
- "traefik.enable=true" - "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: 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: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}" DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE_LOWER_CASE}"
HTTP_RELATIVE_PATH: "/ccp-teiler" HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
teiler-dashboard: teiler-dashboard:
image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop #image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
image: docker.verbis.dkfz.de/ccp/samply/teiler-dashboard:bbmri
container_name: bridgehead-teiler-dashboard container_name: bridgehead-teiler-dashboard
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
- "traefik.http.routers.teiler_dashboard_ccp.rule=PathPrefix(`/ccp-teiler-dashboard`)" - "traefik.http.routers.teiler_dashboard_${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_${PLATFORM}_strip"
environment: environment:
DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}" DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
TEILER_BACKEND_URL: "https://${HOST}/ccp-teiler-backend" TEILER_BACKEND_URL: "https://${HOST}/${PLATFORM}-teiler-backend"
OIDC_URL: "${OIDC_URL}" OIDC_URL: "${OIDC_URL}"
OIDC_REALM: "${OIDC_REALM}" OIDC_REALM: "${OIDC_REALM}"
OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}" OIDC_CLIENT_ID: "${OIDC_PUBLIC_CLIENT_ID}"
@ -40,42 +41,42 @@ services:
TEILER_ADMIN_PHONE: "${OPERATOR_PHONE}" TEILER_ADMIN_PHONE: "${OPERATOR_PHONE}"
TEILER_PROJECT: "${PROJECT}" TEILER_PROJECT: "${PROJECT}"
EXPORTER_API_KEY: "${EXPORTER_API_KEY}" EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
TEILER_ORCHESTRATOR_URL: "https://${HOST}/ccp-teiler" TEILER_ORCHESTRATOR_URL: "https://${HOST}/${PLATFORM}-teiler"
TEILER_DASHBOARD_HTTP_RELATIVE_PATH: "/ccp-teiler-dashboard" TEILER_DASHBOARD_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler-dashboard"
TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/ccp-teiler" TEILER_ORCHESTRATOR_HTTP_RELATIVE_PATH: "/${PLATFORM}-teiler"
TEILER_USER: "${OIDC_USER_GROUP}" TEILER_USER: "${OIDC_USER_GROUP}"
TEILER_ADMIN: "${OIDC_ADMIN_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: "${PLATFORM}"
teiler-backend: teiler-backend:
image: docker.verbis.dkfz.de/ccp/dktk-teiler-backend:latest image: docker.verbis.dkfz.de/ccp/${PROJECT}-teiler-backend:latest
container_name: bridgehead-teiler-backend container_name: bridgehead-teiler-backend
labels: labels:
- "traefik.enable=true" - "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: environment:
LOG_LEVEL: "INFO" LOG_LEVEL: "INFO"
APPLICATION_PORT: "8085" APPLICATION_PORT: "8085"
APPLICATION_ADDRESS: "${HOST}" APPLICATION_ADDRESS: "${HOST}"
DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}" DEFAULT_LANGUAGE: "${TEILER_DEFAULT_LANGUAGE}"
CONFIG_ENV_VAR_PATH: "/run/secrets/ccp.conf" CONFIG_ENV_VAR_PATH: "/run/secrets/project-conf"
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"
CENTRAX_URL: "${CENTRAXX_URL}" CENTRAX_URL: "${CENTRAXX_URL}"
HTTP_PROXY: "http://forward_proxy:3128" HTTP_PROXY: "http://forward_proxy:3128"
ENABLE_MTBA: "${ENABLE_MTBA}" ENABLE_MTBA: "${ENABLE_MTBA}"
ENABLE_DATASHIELD: "${ENABLE_DATASHIELD}" ENABLE_DATASHIELD: "${ENABLE_DATASHIELD}"
secrets: secrets:
- ccp.conf - project-conf
secrets: secrets:
ccp.conf: project-conf:
file: /etc/bridgehead/ccp.conf file: "/etc/bridgehead/${PROJECT}.conf"

View File

@ -2,7 +2,7 @@
if [ "$ENABLE_TEILER" == true ];then if [ "$ENABLE_TEILER" == true ];then
log INFO "Teiler setup detected -- will start Teiler services." log INFO "Teiler setup detected -- will start Teiler services."
OVERRIDE+=" -f ./$PROJECT/modules/teiler-compose.yml" OVERRIDE+=" -f ./ccp/modules/teiler-compose.yml"
TEILER_DEFAULT_LANGUAGE=DE TEILER_DEFAULT_LANGUAGE=DE
TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,} TEILER_DEFAULT_LANGUAGE_LOWER_CASE=${TEILER_DEFAULT_LANGUAGE,,}
add_public_oidc_redirect_url "/ccp-teiler/*" add_public_oidc_redirect_url "/ccp-teiler/*"

View File

@ -5,6 +5,7 @@ FOCUS_BEAM_SECRET_SHORT="$(cat /proc/sys/kernel/random/uuid | sed 's/[-]//g' | h
FOCUS_RETRY_COUNT=${FOCUS_RETRY_COUNT:-64} FOCUS_RETRY_COUNT=${FOCUS_RETRY_COUNT:-64}
SUPPORT_EMAIL=support-ccp@dkfz-heidelberg.de SUPPORT_EMAIL=support-ccp@dkfz-heidelberg.de
PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem PRIVATEKEYFILENAME=/etc/bridgehead/pki/${SITE_ID}.priv.pem
PLATFORM=ccp
BROKER_URL_FOR_PREREQ=$BROKER_URL BROKER_URL_FOR_PREREQ=$BROKER_URL
@ -29,4 +30,4 @@ done
idManagementSetup idManagementSetup
mtbaSetup mtbaSetup
obds2fhirRestSetup obds2fhirRestSetup
blazeSecondarySetup blazeSecondarySetup

View File

@ -1,6 +1,10 @@
version: "3.7" version: "3.7"
services: services:
landing:
deploy:
replicas: 0 #deactivate landing page
blaze: blaze:
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28 image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
container_name: bridgehead-kr-blaze container_name: bridgehead-kr-blaze

View File

@ -1,6 +1,8 @@
version: "3.7" version: "3.7"
services: services:
landing: landing:
deploy:
replicas: 1 #reactivate if lens is in use
container_name: lens_federated-search container_name: lens_federated-search
image: docker.verbis.dkfz.de/ccp/lens:${SITE_ID} image: docker.verbis.dkfz.de/ccp/lens:${SITE_ID}
labels: labels:

View File

@ -171,8 +171,10 @@ optimizeBlazeMemoryUsage() {
if [ $available_system_memory_chunks -eq 0 ]; then if [ $available_system_memory_chunks -eq 0 ]; then
log WARN "Only ${BLAZE_MEMORY_CAP} system memory available for Blaze. If your Blaze stores more than 128000 fhir ressources it will run significally slower." log WARN "Only ${BLAZE_MEMORY_CAP} system memory available for Blaze. If your Blaze stores more than 128000 fhir ressources it will run significally slower."
export BLAZE_RESOURCE_CACHE_CAP=128000; export BLAZE_RESOURCE_CACHE_CAP=128000;
export BLAZE_CQL_CACHE_CAP=32;
else else
export BLAZE_RESOURCE_CACHE_CAP=$((available_system_memory_chunks * 312500)) export BLAZE_RESOURCE_CACHE_CAP=$((available_system_memory_chunks * 312500))
export BLAZE_CQL_CACHE_CAP=$((($system_memory_in_mb/4)/16));
fi fi
fi fi
} }