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Integrating cbioportal

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root 2023-12-15 12:30:14 +01:00 committed by djuarezgf
parent 9f97792d6a
commit 66d4629978
2 changed files with 26 additions and 19 deletions
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39
ccp/modules/cbioportal-compose.yml
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@ -1,22 +1,29 @@
version: '3.7' version: '3.7'
services: services:
# cbioportal: cbioportal:
# image: docker.verbis.dkfz.de/ccp/dktk-cbioportal:latest #image: docker.verbis.dkfz.de/ccp/dktk-cbioportal:latest
# container_name: bridgehead-cbioportal image: dktk-cbioportal
# environment: container_name: bridgehead-cbioportal
# DB_PASSWORD: ${CBIOPORTAL_DB_PASSWORD} environment:
# depends_on: DB_PASSWORD: ${CBIOPORTAL_DB_PASSWORD}
# - cbioportal-database HTTP_RELATIVE_PATH: "/cbioportal"
# - cbioportal-session UPLOAD_HTTP_RELATIVE_PATH: "/cbioportal-upload"
# labels: depends_on:
# - "traefik.enable=true" - cbioportal-database
# - "traefik.http.routers.cbioportal.rule=PathPrefix(`/cbioportal`)" - cbioportal-session
# - "traefik.http.services.cbioportal.loadbalancer.server.port=8080" labels:
# - "traefik.http.routers.cbioportal.tls=true" - "traefik.enable=true"
# - "traefik.http.routers.cbioportal-update.rule=PathPrefix(`/cbioportal-update`)" - "traefik.http.routers.cbioportal.rule=PathPrefix(`/cbioportal`)"
# - "traefik.http.services.cbioportal-update.loadbalancer.server.port=8001" - "traefik.http.routers.cbioportal.service=cbioportal
# - "traefik.http.routers.cbioportal-update.tls=true" - "traefik.http.services.cbioportal.loadbalancer.server.port=8080"
- "traefik.http.routers.cbioportal.tls=true"
- "traefik.http.routers.cbioportal-upload.rule=PathPrefix(`/cbioportal-upload`)"
- "traefik.http.routers.cbioportal-upload.service=cbioportal-upload
- "traefik.http.routers.cbioportal-upload.tls=true"
- "traefik.http.services.cbioportal-upload.loadbalancer.server.port=8001"
cbioportal-database: cbioportal-database:
#image: docker.verbis.dkfz.de/ccp/dktk-cbioportal-database:latest #image: docker.verbis.dkfz.de/ccp/dktk-cbioportal-database:latest

4
ccp/modules/cbioportal-setup.sh
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@ -1,8 +1,8 @@
#!/bin/bash -e #!/bin/bash -e
if [ "$ENABLE_CBIOPORTAL" == true ]; then # if [ "$ENABLE_CBIOPORTAL" == true ]; then
log INFO "cBioPortal setup detected -- will start cBioPortal service." log INFO "cBioPortal setup detected -- will start cBioPortal service."
OVERRIDE+=" -f ./$PROJECT/modules/cbioportal-compose.yml" OVERRIDE+=" -f ./$PROJECT/modules/cbioportal-compose.yml"
CBIOPORTAL_DB_PASSWORD="$(echo \"This is a salt string to generate one consistent password for the cbioportal database. It is not required to be secret.\" | openssl rsautl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)" CBIOPORTAL_DB_PASSWORD="$(echo \"This is a salt string to generate one consistent password for the cbioportal database. It is not required to be secret.\" | openssl rsautl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 30)"
CBIOPORTAL_DB_ROOT_PASSWORD="$(echo \"This is a salt string to generate one consistent root password for the cbioportal database. It is not required to be secret.\" | openssl rsautl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 64)" CBIOPORTAL_DB_ROOT_PASSWORD="$(echo \"This is a salt string to generate one consistent root password for the cbioportal database. It is not required to be secret.\" | openssl rsautl -sign -inkey /etc/bridgehead/pki/${SITE_ID}.priv.pem | base64 | head -c 64)"
fi # fi