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10 Commits
dnpm-etl-r
...
feature/ad
Author | SHA1 | Date | |
---|---|---|---|
63274a4aba | |||
183e9c7e69 | |||
cfa0709e17 | |||
77e4cc53c6 | |||
9cf6538568 | |||
51743b77e7 | |||
5ea782c90c | |||
1d3c398370 | |||
5a0a804486 | |||
a899588f15 |
@ -254,8 +254,6 @@ sh bridgehead uninstall
|
|||||||
|
|
||||||
## Site-specific configuration
|
## Site-specific configuration
|
||||||
|
|
||||||
[How to Change Config Access Token](docs/update-access-token.md)
|
|
||||||
|
|
||||||
### HTTPS Access
|
### 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).
|
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).
|
||||||
|
@ -4,7 +4,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-bbmri-blaze
|
container_name: bridgehead-bbmri-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-bbmri-blaze:8080"
|
BASE_URL: "http://bridgehead-bbmri-blaze:8080"
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
focus-eric:
|
focus-eric:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-bbmri
|
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
|
||||||
container_name: bridgehead-focus-eric
|
container_name: bridgehead-focus-eric
|
||||||
environment:
|
environment:
|
||||||
API_KEY: ${ERIC_FOCUS_BEAM_SECRET_SHORT}
|
API_KEY: ${ERIC_FOCUS_BEAM_SECRET_SHORT}
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
focus-gbn:
|
focus-gbn:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-bbmri
|
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
|
||||||
container_name: bridgehead-focus-gbn
|
container_name: bridgehead-focus-gbn
|
||||||
environment:
|
environment:
|
||||||
API_KEY: ${GBN_FOCUS_BEAM_SECRET_SHORT}
|
API_KEY: ${GBN_FOCUS_BEAM_SECRET_SHORT}
|
||||||
|
26
bbmri/vars
26
bbmri/vars
@ -1,3 +1,22 @@
|
|||||||
|
BROKER_ID=broker-test.bbmri-test.samply.de
|
||||||
|
BROKER_URL=https://${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:-$GBN_BROKER_URL}"
|
||||||
|
|
||||||
|
@ -106,7 +106,8 @@ case "$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 $OVERRIDE up --abort-on-container-exit
|
||||||
;;
|
;;
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-cce-blaze
|
container_name: bridgehead-cce-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-cce-blaze:8080"
|
BASE_URL: "http://bridgehead-cce-blaze:8080"
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-ccp-blaze
|
container_name: bridgehead-ccp-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-ccp-blaze:8080"
|
BASE_URL: "http://bridgehead-ccp-blaze:8080"
|
||||||
@ -22,7 +22,7 @@ services:
|
|||||||
- "traefik.http.routers.blaze_ccp.tls=true"
|
- "traefik.http.routers.blaze_ccp.tls=true"
|
||||||
|
|
||||||
focus:
|
focus:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}-dktk
|
image: docker.verbis.dkfz.de/cache/samply/focus:${FOCUS_TAG}
|
||||||
container_name: bridgehead-focus
|
container_name: bridgehead-focus
|
||||||
environment:
|
environment:
|
||||||
API_KEY: ${FOCUS_BEAM_SECRET_SHORT}
|
API_KEY: ${FOCUS_BEAM_SECRET_SHORT}
|
||||||
@ -33,7 +33,6 @@ services:
|
|||||||
RETRY_COUNT: ${FOCUS_RETRY_COUNT}
|
RETRY_COUNT: ${FOCUS_RETRY_COUNT}
|
||||||
EPSILON: 0.28
|
EPSILON: 0.28
|
||||||
QUERIES_TO_CACHE: '/queries_to_cache.conf'
|
QUERIES_TO_CACHE: '/queries_to_cache.conf'
|
||||||
ENDPOINT_TYPE: ${FOCUS_ENDPOINT_TYPE:-blaze}
|
|
||||||
volumes:
|
volumes:
|
||||||
- /srv/docker/bridgehead/ccp/queries_to_cache.conf:/queries_to_cache.conf
|
- /srv/docker/bridgehead/ccp/queries_to_cache.conf:/queries_to_cache.conf
|
||||||
depends_on:
|
depends_on:
|
||||||
@ -59,6 +58,7 @@ services:
|
|||||||
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
||||||
- /srv/docker/bridgehead/ccp/root.crt.pem:/conf/root.crt.pem:ro
|
- /srv/docker/bridgehead/ccp/root.crt.pem:/conf/root.crt.pem:ro
|
||||||
|
|
||||||
|
|
||||||
volumes:
|
volumes:
|
||||||
blaze-data:
|
blaze-data:
|
||||||
|
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze-secondary:
|
blaze-secondary:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-ccp-blaze-secondary
|
container_name: bridgehead-ccp-blaze-secondary
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-ccp-blaze-secondary:8080"
|
BASE_URL: "http://bridgehead-ccp-blaze-secondary:8080"
|
||||||
|
@ -13,7 +13,7 @@ services:
|
|||||||
PROXY_APIKEY: ${DNPM_BEAM_SECRET_SHORT}
|
PROXY_APIKEY: ${DNPM_BEAM_SECRET_SHORT}
|
||||||
APP_ID: dnpm-connect.${PROXY_ID}
|
APP_ID: dnpm-connect.${PROXY_ID}
|
||||||
DISCOVERY_URL: "./conf/central_targets.json"
|
DISCOVERY_URL: "./conf/central_targets.json"
|
||||||
LOCAL_TARGETS_FILE: "/conf/connect_targets.json"
|
LOCAL_TARGETS_FILE: "./conf/connect_targets.json"
|
||||||
HTTP_PROXY: "http://forward_proxy:3128"
|
HTTP_PROXY: "http://forward_proxy:3128"
|
||||||
HTTPS_PROXY: "http://forward_proxy:3128"
|
HTTPS_PROXY: "http://forward_proxy:3128"
|
||||||
NO_PROXY: beam-proxy,dnpm-backend,host.docker.internal${DNPM_ADDITIONAL_NO_PROXY}
|
NO_PROXY: beam-proxy,dnpm-backend,host.docker.internal${DNPM_ADDITIONAL_NO_PROXY}
|
||||||
@ -25,7 +25,7 @@ services:
|
|||||||
volumes:
|
volumes:
|
||||||
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
||||||
- /etc/bridgehead/dnpm/local_targets.json:/conf/connect_targets.json: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
|
- /etc/bridgehead/dnpm/central_targets.json:/conf/central_targets.json:ro
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.dnpm-connect.rule=PathPrefix(`/dnpm-connect`)"
|
- "traefik.http.routers.dnpm-connect.rule=PathPrefix(`/dnpm-connect`)"
|
||||||
|
@ -1,103 +1,34 @@
|
|||||||
version: "3.7"
|
version: "3.7"
|
||||||
|
|
||||||
services:
|
services:
|
||||||
dnpm-mysql:
|
|
||||||
image: mysql:9
|
|
||||||
healthcheck:
|
|
||||||
test: [ "CMD", "mysqladmin" ,"ping", "-h", "localhost" ]
|
|
||||||
interval: 3s
|
|
||||||
timeout: 5s
|
|
||||||
retries: 5
|
|
||||||
environment:
|
|
||||||
MYSQL_ROOT_HOST: "%"
|
|
||||||
MYSQL_ROOT_PASSWORD: ${DNPM_MYSQL_ROOT_PASSWORD}
|
|
||||||
volumes:
|
|
||||||
- /var/cache/bridgehead/dnpm/mysql:/var/lib/mysql
|
|
||||||
|
|
||||||
dnpm-authup:
|
|
||||||
image: authup/authup:latest
|
|
||||||
container_name: bridgehead-dnpm-authup
|
|
||||||
volumes:
|
|
||||||
- /var/cache/bridgehead/dnpm/authup:/usr/src/app/writable
|
|
||||||
depends_on:
|
|
||||||
dnpm-mysql:
|
|
||||||
condition: service_healthy
|
|
||||||
command: server/core start
|
|
||||||
environment:
|
|
||||||
- PUBLIC_URL=https://${HOST}/auth/
|
|
||||||
- AUTHORIZE_REDIRECT_URL=https://${HOST}
|
|
||||||
- ROBOT_ADMIN_ENABLED=true
|
|
||||||
- ROBOT_ADMIN_SECRET=${DNPM_AUTHUP_SECRET}
|
|
||||||
- ROBOT_ADMIN_SECRET_RESET=true
|
|
||||||
- DB_TYPE=mysql
|
|
||||||
- DB_HOST=dnpm-mysql
|
|
||||||
- DB_USERNAME=root
|
|
||||||
- DB_PASSWORD=${DNPM_MYSQL_ROOT_PASSWORD}
|
|
||||||
- DB_DATABASE=auth
|
|
||||||
labels:
|
|
||||||
- "traefik.enable=true"
|
|
||||||
- "traefik.http.middlewares.authup-strip.stripprefix.prefixes=/auth"
|
|
||||||
- "traefik.http.routers.dnpm-auth.middlewares=authup-strip"
|
|
||||||
- "traefik.http.routers.dnpm-auth.rule=PathPrefix(`/auth`)"
|
|
||||||
- "traefik.http.services.dnpm-auth.loadbalancer.server.port=3000"
|
|
||||||
- "traefik.http.routers.dnpm-auth.tls=true"
|
|
||||||
|
|
||||||
dnpm-portal:
|
|
||||||
image: ghcr.io/dnpm-dip/portal:latest
|
|
||||||
container_name: bridgehead-dnpm-portal
|
|
||||||
environment:
|
|
||||||
- NUXT_API_URL=http://dnpm-backend:9000/
|
|
||||||
- NUXT_PUBLIC_API_URL=https://${HOST}/api/
|
|
||||||
- NUXT_AUTHUP_URL=http://dnpm-authup:3000/
|
|
||||||
- NUXT_PUBLIC_AUTHUP_URL=https://${HOST}/auth/
|
|
||||||
labels:
|
|
||||||
- "traefik.enable=true"
|
|
||||||
- "traefik.http.routers.dnpm-frontend.rule=PathPrefix(`/`)"
|
|
||||||
- "traefik.http.services.dnpm-frontend.loadbalancer.server.port=3000"
|
|
||||||
- "traefik.http.routers.dnpm-frontend.tls=true"
|
|
||||||
|
|
||||||
dnpm-backend:
|
dnpm-backend:
|
||||||
|
image: ghcr.io/kohlbacherlab/bwhc-backend:1.0-snapshot-broker-connector
|
||||||
container_name: bridgehead-dnpm-backend
|
container_name: bridgehead-dnpm-backend
|
||||||
image: ghcr.io/dnpm-dip/backend:latest
|
|
||||||
environment:
|
environment:
|
||||||
- LOCAL_SITE=${ZPM_SITE}:${SITE_NAME} # Format: {Site-ID}:{Site-name}, e.g. UKT:Tübingen
|
- ZPM_SITE=${ZPM_SITE}
|
||||||
- RD_RANDOM_DATA=${DNPM_SYNTH_NUM:--1}
|
- N_RANDOM_FILES=${DNPM_SYNTH_NUM}
|
||||||
- MTB_RANDOM_DATA=${DNPM_SYNTH_NUM:--1}
|
|
||||||
- HATEOAS_HOST=https://${HOST}
|
|
||||||
- CONNECTOR_TYPE=broker
|
|
||||||
- AUTHUP_URL=robot://system:${DNPM_AUTHUP_SECRET}@http://dnpm-authup:3000
|
|
||||||
volumes:
|
volumes:
|
||||||
- /etc/bridgehead/dnpm/config:/dnpm_config
|
- /etc/bridgehead/dnpm:/bwhc_config:ro
|
||||||
- /var/cache/bridgehead/dnpm/backend-data:/dnpm_data
|
- ${DNPM_DATA_DIR}:/bwhc_data
|
||||||
depends_on:
|
|
||||||
dnpm-authup:
|
|
||||||
condition: service_healthy
|
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.services.dnpm-backend.loadbalancer.server.port=9000"
|
- "traefik.http.routers.bwhc-backend.rule=PathPrefix(`/bwhc`)"
|
||||||
# expose everything
|
- "traefik.http.services.bwhc-backend.loadbalancer.server.port=9000"
|
||||||
- "traefik.http.routers.dnpm-backend.rule=PathPrefix(`/api`)"
|
- "traefik.http.routers.bwhc-backend.tls=true"
|
||||||
- "traefik.http.routers.dnpm-backend.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend.service=dnpm-backend"
|
|
||||||
# except ETL
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.rule=PathRegexp(`^/api(/.*)?etl(/.*)?$`)"
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.service=dnpm-backend"
|
|
||||||
# TODO: add to minimal and document
|
|
||||||
- "traefik.http.middlewares.rewrite-mtbfile.replacepathregex.regex=^(.*)/MTBFile$"
|
|
||||||
- "traefik.http.middlewares.rewrite-mtbfile.replacepathregex.replacement=$1"
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.middlewares=rewrite-mtbfile"
|
|
||||||
# this needs an ETL processor with support for basic auth
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.middlewares=auth"
|
|
||||||
# except peer-to-peer
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.rule=PathRegexp(`^/api(/.*)?/peer2peer(/.*)?$`)"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.service=dnpm-backend"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.middlewares=dnpm-backend-peer"
|
|
||||||
# this effectively denies all requests
|
|
||||||
# this is okay, because requests from peers don't go through Traefik
|
|
||||||
- "traefik.http.middlewares.dnpm-backend-peer.ipWhiteList.sourceRange=0.0.0.0/32"
|
|
||||||
|
|
||||||
landing:
|
dnpm-frontend:
|
||||||
|
image: ghcr.io/kohlbacherlab/bwhc-frontend:2209
|
||||||
|
container_name: bridgehead-dnpm-frontend
|
||||||
|
links:
|
||||||
|
- dnpm-backend
|
||||||
|
environment:
|
||||||
|
- NUXT_HOST=0.0.0.0
|
||||||
|
- NUXT_PORT=8080
|
||||||
|
- BACKEND_PROTOCOL=https
|
||||||
|
- BACKEND_HOSTNAME=$HOST
|
||||||
|
- BACKEND_PORT=443
|
||||||
labels:
|
labels:
|
||||||
- "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"
|
- "traefik.enable=true"
|
||||||
|
- "traefik.http.routers.bwhc-frontend.rule=PathPrefix(`/`)"
|
||||||
|
- "traefik.http.services.bwhc-frontend.loadbalancer.server.port=8080"
|
||||||
|
- "traefik.http.routers.bwhc-frontend.tls=true"
|
||||||
|
@ -1,16 +1,28 @@
|
|||||||
#!/bin/bash
|
#!/bin/bash
|
||||||
|
|
||||||
if [ -n "${ENABLE_DNPM_NODE}" ]; then
|
if [ -n "${ENABLE_DNPM_NODE}" ]; then
|
||||||
log INFO "DNPM setup detected -- will start DNPM:DIP node."
|
log INFO "DNPM setup detected (BwHC Node) -- will start BwHC node."
|
||||||
OVERRIDE+=" -f ./$PROJECT/modules/dnpm-node-compose.yml"
|
OVERRIDE+=" -f ./$PROJECT/modules/dnpm-node-compose.yml"
|
||||||
|
|
||||||
# Set variables required for BwHC Node. ZPM_SITE is assumed to be set in /etc/bridgehead/<project>.conf
|
# Set variables required for BwHC Node. ZPM_SITE is assumed to be set in /etc/bridgehead/<project>.conf
|
||||||
|
DNPM_APPLICATION_SECRET="$(echo \"This is a salt string to generate one consistent password for DNPM. It is not required to be secret.\" | sha1sum | openssl pkeyutl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)"
|
||||||
if [ -z "${ZPM_SITE+x}" ]; then
|
if [ -z "${ZPM_SITE+x}" ]; then
|
||||||
log ERROR "Mandatory variable ZPM_SITE not defined!"
|
log ERROR "Mandatory variable ZPM_SITE not defined!"
|
||||||
exit 1
|
exit 1
|
||||||
fi
|
fi
|
||||||
mkdir -p /var/cache/bridgehead/dnpm/ || fail_and_report 1 "Failed to create '/var/cache/bridgehead/dnpm/'. Please run sudo './bridgehead install $PROJECT' again to fix the permissions."
|
if [ -z "${DNPM_DATA_DIR+x}" ]; then
|
||||||
DNPM_SYNTH_NUM=${DNPM_SYNTH_NUM:--1}
|
log ERROR "Mandatory variable DNPM_DATA_DIR not defined!"
|
||||||
DNPM_MYSQL_ROOT_PASSWORD="$(generate_simple_password 'dnpm mysql')"
|
exit 1
|
||||||
DNPM_AUTHUP_SECRET="$(generate_simple_password 'dnpm authup')"
|
fi
|
||||||
|
DNPM_SYNTH_NUM=${DNPM_SYNTH_NUM:-0}
|
||||||
|
if grep -q 'traefik.http.routers.landing.rule=PathPrefix(`/landing`)' /srv/docker/bridgehead/minimal/docker-compose.override.yml 2>/dev/null; then
|
||||||
|
echo "Override of landing page url already in place"
|
||||||
|
else
|
||||||
|
echo "Adding override of landing page url"
|
||||||
|
if [ -f /srv/docker/bridgehead/minimal/docker-compose.override.yml ]; then
|
||||||
|
echo -e ' landing:\n labels:\n - "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"' >> /srv/docker/bridgehead/minimal/docker-compose.override.yml
|
||||||
|
else
|
||||||
|
echo -e 'version: "3.7"\nservices:\n landing:\n labels:\n - "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"' >> /srv/docker/bridgehead/minimal/docker-compose.override.yml
|
||||||
|
fi
|
||||||
|
fi
|
||||||
fi
|
fi
|
||||||
|
@ -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: "${EXPORTER_API_KEY}" # Set in exporter-setup.sh
|
||||||
EXPORTER_URL: "http://exporter:8092"
|
EXPORTER_URL: "http://exporter:8092"
|
||||||
@ -57,16 +57,11 @@ services:
|
|||||||
# There is a risk that the bridgehead restarts, losing the already created export.
|
# There is a risk that the bridgehead restarts, losing the already created export.
|
||||||
|
|
||||||
volumes:
|
volumes:
|
||||||
- "/var/cache/bridgehead/ccp/reporter-files:/app/reports"
|
- "/var/cache/bridgehead/${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"
|
||||||
|
|
||||||
focus:
|
|
||||||
environment:
|
|
||||||
EXPORTER_URL: "http://exporter:8092"
|
|
||||||
EXPORTER_API_KEY: "${EXPORTER_API_KEY}"
|
|
||||||
|
@ -2,7 +2,7 @@
|
|||||||
|
|
||||||
if [ "$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
|
||||||
|
@ -23,7 +23,3 @@ services:
|
|||||||
POSTGRES_DB: "dashboard"
|
POSTGRES_DB: "dashboard"
|
||||||
volumes:
|
volumes:
|
||||||
- "/var/cache/bridgehead/ccp/dashboard-db:/var/lib/postgresql/data"
|
- "/var/cache/bridgehead/ccp/dashboard-db:/var/lib/postgresql/data"
|
||||||
|
|
||||||
focus:
|
|
||||||
environment:
|
|
||||||
POSTGRES_CONNECTION_STRING: "postgresql://dashboard:${DASHBOARD_DB_PASSWORD}@dashboard-db/dashboard"
|
|
@ -4,5 +4,4 @@ if [ "$ENABLE_FHIR2SQL" == true ]; then
|
|||||||
log INFO "Dashboard setup detected -- will start Dashboard backend and FHIR2SQL service."
|
log INFO "Dashboard setup detected -- will start Dashboard backend and FHIR2SQL service."
|
||||||
OVERRIDE+=" -f ./$PROJECT/modules/fhir2sql-compose.yml"
|
OVERRIDE+=" -f ./$PROJECT/modules/fhir2sql-compose.yml"
|
||||||
DASHBOARD_DB_PASSWORD="$(generate_simple_password 'fhir2sql')"
|
DASHBOARD_DB_PASSWORD="$(generate_simple_password 'fhir2sql')"
|
||||||
FOCUS_ENDPOINT_TYPE="blaze-and-sql"
|
|
||||||
fi
|
fi
|
||||||
|
@ -101,12 +101,5 @@ services:
|
|||||||
forward_proxy:
|
forward_proxy:
|
||||||
condition: service_healthy
|
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:
|
volumes:
|
||||||
patientlist-db-data:
|
patientlist-db-data:
|
||||||
|
@ -12,6 +12,7 @@ services:
|
|||||||
CTS_API_KEY: ${NNGM_CTS_APIKEY}
|
CTS_API_KEY: ${NNGM_CTS_APIKEY}
|
||||||
CRYPT_KEY: ${NNGM_CRYPTKEY}
|
CRYPT_KEY: ${NNGM_CRYPTKEY}
|
||||||
#CTS_MAGICPL_SITE: ${SITE_ID}TODO
|
#CTS_MAGICPL_SITE: ${SITE_ID}TODO
|
||||||
|
restart: always
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
|
- "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
|
||||||
|
@ -10,6 +10,7 @@ services:
|
|||||||
SALT: ${LOCAL_SALT}
|
SALT: ${LOCAL_SALT}
|
||||||
KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
|
KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
|
||||||
MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
|
MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
|
||||||
|
restart: always
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
|
- "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
|
||||||
|
@ -7,30 +7,31 @@ services:
|
|||||||
container_name: bridgehead-teiler-orchestrator
|
container_name: bridgehead-teiler-orchestrator
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.teiler_orchestrator_ccp.rule=PathPrefix(`/ccp-teiler`)"
|
- "traefik.http.routers.teiler_orchestrator_${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"
|
||||||
|
@ -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=${TEILER_DEFAULT_LANGUAGE,,}
|
||||||
add_public_oidc_redirect_url "/ccp-teiler/*"
|
add_public_oidc_redirect_url "/ccp-teiler/*"
|
||||||
|
1
ccp/vars
1
ccp/vars
@ -5,6 +5,7 @@ FOCUS_BEAM_SECRET_SHORT="$(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
|
||||||
|
|
||||||
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-dhki-blaze
|
container_name: bridgehead-dhki-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-dhki-blaze:8080"
|
BASE_URL: "http://bridgehead-dhki-blaze:8080"
|
||||||
|
@ -1,42 +0,0 @@
|
|||||||
## 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
|
|
||||||
```
|
|
@ -2,7 +2,7 @@ version: "3.7"
|
|||||||
|
|
||||||
services:
|
services:
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-itcc-blaze
|
container_name: bridgehead-itcc-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-itcc-blaze:8080"
|
BASE_URL: "http://bridgehead-itcc-blaze:8080"
|
||||||
|
@ -6,7 +6,7 @@ services:
|
|||||||
replicas: 0 #deactivate landing page
|
replicas: 0 #deactivate landing page
|
||||||
|
|
||||||
blaze:
|
blaze:
|
||||||
image: docker.verbis.dkfz.de/cache/samply/blaze:0.31
|
image: docker.verbis.dkfz.de/cache/samply/blaze:0.28
|
||||||
container_name: bridgehead-kr-blaze
|
container_name: bridgehead-kr-blaze
|
||||||
environment:
|
environment:
|
||||||
BASE_URL: "http://bridgehead-kr-blaze:8080"
|
BASE_URL: "http://bridgehead-kr-blaze:8080"
|
||||||
|
@ -10,6 +10,7 @@ services:
|
|||||||
SALT: ${LOCAL_SALT}
|
SALT: ${LOCAL_SALT}
|
||||||
KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
|
KEEP_INTERNAL_ID: ${KEEP_INTERNAL_ID:-false}
|
||||||
MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
|
MAINZELLISTE_URL: ${PATIENTLIST_URL:-http://patientlist:8080/patientlist}
|
||||||
|
restart: always
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
|
- "traefik.http.routers.obds2fhir-rest.rule=PathPrefix(`/obds2fhir-rest`) || PathPrefix(`/adt2fhir-rest`)"
|
||||||
|
@ -58,8 +58,7 @@ 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 $DIR pull 2>&1)
|
OUT=$(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
|
fi
|
||||||
if [ $? -ne 0 ]; then
|
if [ $? -ne 0 ]; then
|
||||||
OUT_SAN=$(echo $OUT | sed -E 's|://[^:]+:[^@]+@|://credentials@|g')
|
report_error log "Unable to update git $DIR: $OUT"
|
||||||
report_error log "Unable to update git $DIR: $OUT_SAN"
|
|
||||||
fi
|
fi
|
||||||
|
|
||||||
new_git_hash="$(git -C $DIR rev-parse --verify HEAD)"
|
new_git_hash="$(git -C $DIR rev-parse --verify HEAD)"
|
||||||
|
@ -16,7 +16,7 @@ services:
|
|||||||
- --entrypoints.web.http.redirections.entrypoint.scheme=https
|
- --entrypoints.web.http.redirections.entrypoint.scheme=https
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.dashboard.rule=PathPrefix(`/dashboard/`)"
|
- "traefik.http.routers.dashboard.rule=PathPrefix(`/api`) || PathPrefix(`/dashboard/`)"
|
||||||
- "traefik.http.routers.dashboard.entrypoints=websecure"
|
- "traefik.http.routers.dashboard.entrypoints=websecure"
|
||||||
- "traefik.http.routers.dashboard.service=api@internal"
|
- "traefik.http.routers.dashboard.service=api@internal"
|
||||||
- "traefik.http.routers.dashboard.tls=true"
|
- "traefik.http.routers.dashboard.tls=true"
|
||||||
|
@ -1,142 +0,0 @@
|
|||||||
{
|
|
||||||
"sites": [
|
|
||||||
{
|
|
||||||
"id": "UKFR",
|
|
||||||
"name": "Freiburg",
|
|
||||||
"virtualhost": "ukfr.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKHD",
|
|
||||||
"name": "Heidelberg",
|
|
||||||
"virtualhost": "ukhd.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKT",
|
|
||||||
"name": "Tübingen",
|
|
||||||
"virtualhost": "ukt.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKU",
|
|
||||||
"name": "Ulm",
|
|
||||||
"virtualhost": "uku.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UM",
|
|
||||||
"name": "Mainz",
|
|
||||||
"virtualhost": "um.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKMR",
|
|
||||||
"name": "Marburg",
|
|
||||||
"virtualhost": "ukmr.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKE",
|
|
||||||
"name": "Hamburg",
|
|
||||||
"virtualhost": "uke.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKA",
|
|
||||||
"name": "Aachen",
|
|
||||||
"virtualhost": "uka.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "Charite",
|
|
||||||
"name": "Berlin",
|
|
||||||
"virtualhost": "charite.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.berlin-test.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "MRI",
|
|
||||||
"name": "Muenchen-tum",
|
|
||||||
"virtualhost": "mri.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.muenchen-tum.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "KUM",
|
|
||||||
"name": "Muenchen-lmu",
|
|
||||||
"virtualhost": "kum.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.muenchen-lmu.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "MHH",
|
|
||||||
"name": "Hannover",
|
|
||||||
"virtualhost": "mhh.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.hannover.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKDD",
|
|
||||||
"name": "dresden-dnpm",
|
|
||||||
"virtualhost": "ukdd.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dresden-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKB",
|
|
||||||
"name": "Bonn",
|
|
||||||
"virtualhost": "ukb.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.bonn-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKD",
|
|
||||||
"name": "Duesseldorf",
|
|
||||||
"virtualhost": "ukd.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.duesseldorf-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKK",
|
|
||||||
"name": "Koeln",
|
|
||||||
"virtualhost": "ukk.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.dnpm-bridge.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UME",
|
|
||||||
"name": "Essen",
|
|
||||||
"virtualhost": "ume.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.essen.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKM",
|
|
||||||
"name": "Muenster",
|
|
||||||
"virtualhost": "ukm.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.muenster-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKF",
|
|
||||||
"name": "Frankfurt",
|
|
||||||
"virtualhost": "ukf.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.frankfurt.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UMG",
|
|
||||||
"name": "Goettingen",
|
|
||||||
"virtualhost": "umg.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.goettingen.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKW",
|
|
||||||
"name": "Würzburg",
|
|
||||||
"virtualhost": "ukw.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.wuerzburg-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "UKSH",
|
|
||||||
"name": "Schleswig-Holstein",
|
|
||||||
"virtualhost": "uksh.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.uksh-dnpm.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
},
|
|
||||||
{
|
|
||||||
"id": "TKT",
|
|
||||||
"name": "Test",
|
|
||||||
"virtualhost": "tkt.dnpm.de",
|
|
||||||
"beamconnect": "dnpm-connect.tobias-develop.broker.ccp-it.dktk.dkfz.de"
|
|
||||||
}
|
|
||||||
]
|
|
||||||
}
|
|
@ -29,7 +29,7 @@ services:
|
|||||||
PROXY_APIKEY: ${DNPM_BEAM_SECRET_SHORT}
|
PROXY_APIKEY: ${DNPM_BEAM_SECRET_SHORT}
|
||||||
APP_ID: dnpm-connect.${DNPM_PROXY_ID}
|
APP_ID: dnpm-connect.${DNPM_PROXY_ID}
|
||||||
DISCOVERY_URL: "./conf/central_targets.json"
|
DISCOVERY_URL: "./conf/central_targets.json"
|
||||||
LOCAL_TARGETS_FILE: "/conf/connect_targets.json"
|
LOCAL_TARGETS_FILE: "./conf/connect_targets.json"
|
||||||
HTTP_PROXY: http://forward_proxy:3128
|
HTTP_PROXY: http://forward_proxy:3128
|
||||||
HTTPS_PROXY: http://forward_proxy:3128
|
HTTPS_PROXY: http://forward_proxy:3128
|
||||||
NO_PROXY: dnpm-beam-proxy,dnpm-backend, host.docker.internal${DNPM_ADDITIONAL_NO_PROXY}
|
NO_PROXY: dnpm-beam-proxy,dnpm-backend, host.docker.internal${DNPM_ADDITIONAL_NO_PROXY}
|
||||||
@ -41,7 +41,7 @@ services:
|
|||||||
volumes:
|
volumes:
|
||||||
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
- /etc/bridgehead/trusted-ca-certs:/conf/trusted-ca-certs:ro
|
||||||
- /etc/bridgehead/dnpm/local_targets.json:/conf/connect_targets.json: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
|
- /etc/bridgehead/dnpm/central_targets.json:/conf/central_targets.json:ro
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.dnpm-connect.rule=PathPrefix(`/dnpm-connect`)"
|
- "traefik.http.routers.dnpm-connect.rule=PathPrefix(`/dnpm-connect`)"
|
||||||
|
@ -1,99 +1,34 @@
|
|||||||
version: "3.7"
|
version: "3.7"
|
||||||
|
|
||||||
services:
|
services:
|
||||||
dnpm-mysql:
|
|
||||||
image: mysql:9
|
|
||||||
healthcheck:
|
|
||||||
test: [ "CMD", "mysqladmin" ,"ping", "-h", "localhost" ]
|
|
||||||
interval: 3s
|
|
||||||
timeout: 5s
|
|
||||||
retries: 5
|
|
||||||
environment:
|
|
||||||
MYSQL_ROOT_HOST: "%"
|
|
||||||
MYSQL_ROOT_PASSWORD: ${DNPM_MYSQL_ROOT_PASSWORD}
|
|
||||||
volumes:
|
|
||||||
- /var/cache/bridgehead/dnpm/mysql:/var/lib/mysql
|
|
||||||
|
|
||||||
dnpm-authup:
|
|
||||||
image: authup/authup:latest
|
|
||||||
container_name: bridgehead-dnpm-authup
|
|
||||||
volumes:
|
|
||||||
- /var/cache/bridgehead/dnpm/authup:/usr/src/app/writable
|
|
||||||
depends_on:
|
|
||||||
dnpm-mysql:
|
|
||||||
condition: service_healthy
|
|
||||||
command: server/core start
|
|
||||||
environment:
|
|
||||||
- PUBLIC_URL=https://${HOST}/auth/
|
|
||||||
- AUTHORIZE_REDIRECT_URL=https://${HOST}
|
|
||||||
- ROBOT_ADMIN_ENABLED=true
|
|
||||||
- ROBOT_ADMIN_SECRET=${DNPM_AUTHUP_SECRET}
|
|
||||||
- ROBOT_ADMIN_SECRET_RESET=true
|
|
||||||
- DB_TYPE=mysql
|
|
||||||
- DB_HOST=dnpm-mysql
|
|
||||||
- DB_USERNAME=root
|
|
||||||
- DB_PASSWORD=${DNPM_MYSQL_ROOT_PASSWORD}
|
|
||||||
- DB_DATABASE=auth
|
|
||||||
labels:
|
|
||||||
- "traefik.enable=true"
|
|
||||||
- "traefik.http.middlewares.authup-strip.stripprefix.prefixes=/auth/"
|
|
||||||
- "traefik.http.routers.dnpm-auth.middlewares=authup-strip"
|
|
||||||
- "traefik.http.routers.dnpm-auth.rule=PathPrefix(`/auth`)"
|
|
||||||
- "traefik.http.services.dnpm-auth.loadbalancer.server.port=3000"
|
|
||||||
- "traefik.http.routers.dnpm-auth.tls=true"
|
|
||||||
|
|
||||||
dnpm-portal:
|
|
||||||
image: ghcr.io/dnpm-dip/portal:latest
|
|
||||||
container_name: bridgehead-dnpm-portal
|
|
||||||
environment:
|
|
||||||
- NUXT_API_URL=http://dnpm-backend:9000/
|
|
||||||
- NUXT_PUBLIC_API_URL=https://${HOST}/api/
|
|
||||||
- NUXT_AUTHUP_URL=http://dnpm-authup:3000/
|
|
||||||
- NUXT_PUBLIC_AUTHUP_URL=https://${HOST}/auth/
|
|
||||||
labels:
|
|
||||||
- "traefik.enable=true"
|
|
||||||
- "traefik.http.routers.dnpm-frontend.rule=PathPrefix(`/`)"
|
|
||||||
- "traefik.http.services.dnpm-frontend.loadbalancer.server.port=3000"
|
|
||||||
- "traefik.http.routers.dnpm-frontend.tls=true"
|
|
||||||
|
|
||||||
dnpm-backend:
|
dnpm-backend:
|
||||||
|
image: ghcr.io/kohlbacherlab/bwhc-backend:1.0-snapshot-broker-connector
|
||||||
container_name: bridgehead-dnpm-backend
|
container_name: bridgehead-dnpm-backend
|
||||||
image: ghcr.io/dnpm-dip/backend:latest
|
|
||||||
environment:
|
environment:
|
||||||
- LOCAL_SITE=${ZPM_SITE}:${SITE_NAME} # Format: {Site-ID}:{Site-name}, e.g. UKT:Tübingen
|
- ZPM_SITE=${ZPM_SITE}
|
||||||
- RD_RANDOM_DATA=${DNPM_SYNTH_NUM:--1}
|
- N_RANDOM_FILES=${DNPM_SYNTH_NUM}
|
||||||
- MTB_RANDOM_DATA=${DNPM_SYNTH_NUM:--1}
|
|
||||||
- HATEOAS_HOST=https://${HOST}
|
|
||||||
- CONNECTOR_TYPE=broker
|
|
||||||
- AUTHUP_URL=robot://system:${DNPM_AUTHUP_SECRET}@http://dnpm-authup:3000
|
|
||||||
volumes:
|
volumes:
|
||||||
- /etc/bridgehead/dnpm/config:/dnpm_config
|
- /etc/bridgehead/dnpm:/bwhc_config:ro
|
||||||
- /var/cache/bridgehead/dnpm/backend-data:/dnpm_data
|
- ${DNPM_DATA_DIR}:/bwhc_data
|
||||||
depends_on:
|
|
||||||
dnpm-authup:
|
|
||||||
condition: service_healthy
|
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.services.dnpm-backend.loadbalancer.server.port=9000"
|
- "traefik.http.routers.bwhc-backend.rule=PathPrefix(`/bwhc`)"
|
||||||
# expose everything
|
- "traefik.http.services.bwhc-backend.loadbalancer.server.port=9000"
|
||||||
- "traefik.http.routers.dnpm-backend.rule=PathPrefix(`/api`)"
|
- "traefik.http.routers.bwhc-backend.tls=true"
|
||||||
- "traefik.http.routers.dnpm-backend.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend.service=dnpm-backend"
|
|
||||||
# except ETL
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.rule=PathRegexp(`^/api(/.*)?etl(/.*)?$`)"
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.service=dnpm-backend"
|
|
||||||
# this needs an ETL processor with support for basic auth
|
|
||||||
- "traefik.http.routers.dnpm-backend-etl.middlewares=auth"
|
|
||||||
# except peer-to-peer
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.rule=PathRegexp(`^/api(/.*)?/peer2peer(/.*)?$`)"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.tls=true"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.service=dnpm-backend"
|
|
||||||
- "traefik.http.routers.dnpm-backend-peer.middlewares=dnpm-backend-peer"
|
|
||||||
# this effectively denies all requests
|
|
||||||
# this is okay, because requests from peers don't go through Traefik
|
|
||||||
- "traefik.http.middlewares.dnpm-backend-peer.ipWhiteList.sourceRange=0.0.0.0/32"
|
|
||||||
|
|
||||||
landing:
|
dnpm-frontend:
|
||||||
|
image: ghcr.io/kohlbacherlab/bwhc-frontend:2209
|
||||||
|
container_name: bridgehead-dnpm-frontend
|
||||||
|
links:
|
||||||
|
- dnpm-backend
|
||||||
|
environment:
|
||||||
|
- NUXT_HOST=0.0.0.0
|
||||||
|
- NUXT_PORT=8080
|
||||||
|
- BACKEND_PROTOCOL=https
|
||||||
|
- BACKEND_HOSTNAME=$HOST
|
||||||
|
- BACKEND_PORT=443
|
||||||
labels:
|
labels:
|
||||||
- "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"
|
- "traefik.enable=true"
|
||||||
|
- "traefik.http.routers.bwhc-frontend.rule=PathPrefix(`/`)"
|
||||||
|
- "traefik.http.services.bwhc-frontend.loadbalancer.server.port=8080"
|
||||||
|
- "traefik.http.routers.bwhc-frontend.tls=true"
|
||||||
|
@ -1,16 +1,28 @@
|
|||||||
#!/bin/bash
|
#!/bin/bash
|
||||||
|
|
||||||
if [ -n "${ENABLE_DNPM_NODE}" ]; then
|
if [ -n "${ENABLE_DNPM_NODE}" ]; then
|
||||||
log INFO "DNPM setup detected -- will start DNPM:DIP node."
|
log INFO "DNPM setup detected (BwHC Node) -- will start BwHC node."
|
||||||
OVERRIDE+=" -f ./$PROJECT/modules/dnpm-node-compose.yml"
|
OVERRIDE+=" -f ./$PROJECT/modules/dnpm-node-compose.yml"
|
||||||
|
|
||||||
# Set variables required for BwHC Node. ZPM_SITE is assumed to be set in /etc/bridgehead/<project>.conf
|
# Set variables required for BwHC Node. ZPM_SITE is assumed to be set in /etc/bridgehead/<project>.conf
|
||||||
|
DNPM_APPLICATION_SECRET="$(echo \"This is a salt string to generate one consistent password for DNPM. It is not required to be secret.\" | sha1sum | openssl pkeyutl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)"
|
||||||
if [ -z "${ZPM_SITE+x}" ]; then
|
if [ -z "${ZPM_SITE+x}" ]; then
|
||||||
log ERROR "Mandatory variable ZPM_SITE not defined!"
|
log ERROR "Mandatory variable ZPM_SITE not defined!"
|
||||||
exit 1
|
exit 1
|
||||||
fi
|
fi
|
||||||
mkdir -p /var/cache/bridgehead/dnpm/ || fail_and_report 1 "Failed to create '/var/cache/bridgehead/dnpm/'. Please run sudo './bridgehead install $PROJECT' again to fix the permissions."
|
if [ -z "${DNPM_DATA_DIR+x}" ]; then
|
||||||
DNPM_SYNTH_NUM=${DNPM_SYNTH_NUM:--1}
|
log ERROR "Mandatory variable DNPM_DATA_DIR not defined!"
|
||||||
DNPM_MYSQL_ROOT_PASSWORD="$(generate_simple_password 'dnpm mysql')"
|
exit 1
|
||||||
DNPM_AUTHUP_SECRET="$(generate_simple_password 'dnpm authup')"
|
fi
|
||||||
|
DNPM_SYNTH_NUM=${DNPM_SYNTH_NUM:-0}
|
||||||
|
if grep -q 'traefik.http.routers.landing.rule=PathPrefix(`/landing`)' /srv/docker/bridgehead/minimal/docker-compose.override.yml 2>/dev/null; then
|
||||||
|
echo "Override of landing page url already in place"
|
||||||
|
else
|
||||||
|
echo "Adding override of landing page url"
|
||||||
|
if [ -f /srv/docker/bridgehead/minimal/docker-compose.override.yml ]; then
|
||||||
|
echo -e ' landing:\n labels:\n - "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"' >> /srv/docker/bridgehead/minimal/docker-compose.override.yml
|
||||||
|
else
|
||||||
|
echo -e 'version: "3.7"\nservices:\n landing:\n labels:\n - "traefik.http.routers.landing.rule=PathPrefix(`/landing`)"' >> /srv/docker/bridgehead/minimal/docker-compose.override.yml
|
||||||
|
fi
|
||||||
|
fi
|
||||||
fi
|
fi
|
||||||
|
@ -11,6 +11,7 @@ services:
|
|||||||
CTS_API_KEY: ${NNGM_CTS_APIKEY}
|
CTS_API_KEY: ${NNGM_CTS_APIKEY}
|
||||||
CRYPT_KEY: ${NNGM_CRYPTKEY}
|
CRYPT_KEY: ${NNGM_CRYPTKEY}
|
||||||
#CTS_MAGICPL_SITE: ${SITE_ID}TODO
|
#CTS_MAGICPL_SITE: ${SITE_ID}TODO
|
||||||
|
restart: always
|
||||||
labels:
|
labels:
|
||||||
- "traefik.enable=true"
|
- "traefik.enable=true"
|
||||||
- "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
|
- "traefik.http.routers.connector.rule=PathPrefix(`/nngm-connector`)"
|
||||||
|
Reference in New Issue
Block a user