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update mtba config

This commit is contained in:
p.delpy@dkfz-heidelberg.de 2023-01-27 11:13:49 +01:00 committed by Torben Brenner
parent bce28342f9
commit e9455a5558
2 changed files with 11 additions and 11 deletions
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2
ccp/modules/id-management-setup.sh
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@ -1,7 +1,7 @@
#!/bin/bash #!/bin/bash
function idManagementSetup() { function idManagementSetup() {
if [ -n "$ENABLE_ID_MANAGEMENT" ]; then if [ -n "$IDMANAGER_UPLOAD_APIKEY" ]; then
log INFO "id-management setup detected -- will start id-management (mainzelliste & magicpl)." log INFO "id-management setup detected -- will start id-management (mainzelliste & magicpl)."
OVERRIDE+=" -f ./$PROJECT/modules/id-management-compose.yml" OVERRIDE+=" -f ./$PROJECT/modules/id-management-compose.yml"

20
ccp/mtba-compose.yml
View File

@ -5,20 +5,20 @@ 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}
NEW_FILES_DIRECTORY: "/app/input" FILE_END_OF_LINE: ${MTBA_FILE_END_OF_LINE}
PERSIST_DIRECTORY: "/app/persist" 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(`/`)"