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Merge pull request #56 from samply/feature/idManagementModule_Rebase 

Updated MTBA Module
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Torben Brenner 2023-02-08 14:04:43 +01:00 committed by GitHub
parent 73b1993628 e9455a5558
commit cdf9c359f0
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1 changed files with 12 additions and 12 deletions
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24
ccp/mtba-compose.yml
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@ -5,28 +5,28 @@ services:
image: samply/mtba:develop image: samply/mtba:develop
container_name: bridgehead-mtba container_name: bridgehead-mtba
environment: environment:
BLAZE_STORE_URL: http://bridgehead-ccp-blaze:8080/fhir BLAZE_STORE_URL: http://blaze:8080
# NOTE: Aktuell Berechtigungen wie MagicPL!!! # NOTE: Aktuell Berechtigungen wie MagicPL!!!
# TODO: Add separate ApiKey to MagicPL only for MTBA! # TODO: Add separate ApiKey to MagicPL only for MTBA!
ID_MANAGER_API_KEY: ${IDMANAGER_UPLOAD_APIKEY} ID_MANAGER_API_KEY: ${IDMANAGER_UPLOAD_APIKEY}
ID_MANAGER_PSEUDONYM_ID_TYPE: BK_${IDMANAGEMENT_FRIENDLY_ID}_L-ID ID_MANAGER_PSEUDONYM_ID_TYPE: BK_${IDMANAGEMENT_FRIENDLY_ID}_L-ID
ID_MANAGER_URL: http://bridgehead-id-manager:8080 ID_MANAGER_URL: http://id-manager:8080/id-manager
PATIENT_CSV_FIRST_NAME_HEADER: ${PATIENT_CSV_FIRST_NAME_HEADER:-"FIRST_NAME"} PATIENT_CSV_FIRST_NAME_HEADER: ${MTBA_PATIENT_CSV_FIRST_NAME_HEADER}
PATIENT_CSV_LAST_NAME_HEADER: ${PATIENT_CSV_LAST_NAME_HEADER:-"LAST_NAME"} PATIENT_CSV_LAST_NAME_HEADER: ${MTBA_PATIENT_CSV_LAST_NAME_HEADER}
PATIENT_CSV_GENDER_HEADER: ${PATIENT_CSV_GENDER_HEADER:-"GENDER"} PATIENT_CSV_GENDER_HEADER: ${MTBA_PATIENT_CSV_GENDER_HEADER}
PATIENT_CSV_BIRTHDAY_HEADER: ${PATIENT_CSV_BIRTHDAY_HEADER:-"BIRTHDAY"} PATIENT_CSV_BIRTHDAY_HEADER: ${MTBA_PATIENT_CSV_BIRTHDAY_HEADER}
CBIOPORTAL_URL: http://bridgehead-ccp-cbioportal:8080 CBIOPORTAL_URL: http://cbioportal:8080
MUTATIONS_CSV_SCRIPT_INTERPRETER: "python3" FILE_CHARSET: ${MTBA_FILE_CHARSET}
FILE_END_OF_LINE: ${MTBA_FILE_END_OF_LINE}
CSV_DELIMITER: ${MTBA_CSV_DELIMITER}
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"
- "traefik.http.routers.mtba.rule=PathPrefix(`/`)" - "traefik.http.routers.mtba.rule=PathPrefix(`/`)"
- "traefik.http.services.mtba.loadbalancer.server.port=80" - "traefik.http.services.mtba.loadbalancer.server.port=80"
- "traefik.http.routers.mtba.tls=true" - "traefik.http.routers.mtba.tls=true"
volumes: volumes:
# This directory persists the FHIR Resources that are needed to import data into blaze. - /tmp/bridgehead/mtba/input:/app/input
- mtba-data:/app/mtba-files/persist - /tmp/bridgehead/mtba/persist:/app/persist
# Place new import files in this directory
- /tmp/bridgehead/mtba/:/app/mtba-files/input
# TODO: Include CBioPortal in Deployment ... # TODO: Include CBioPortal in Deployment ...
# NOTE: CBioPortal can't load data while the system is running. So after import of data bridgehead needs to be restarted! # NOTE: CBioPortal can't load data while the system is running. So after import of data bridgehead needs to be restarted!