From e9455a5558dd33de59bb46e3c048368f4c30df34 Mon Sep 17 00:00:00 2001
From: "p.delpy@dkfz-heidelberg.de"
Date: Fri, 27 Jan 2023 11:13:49 +0100
Subject: [PATCH] update mtba config
---
ccp/modules/id-management-setup.sh | 2 +-
ccp/mtba-compose.yml | 20 ++++++++++----------
2 files changed, 11 insertions(+), 11 deletions(-)
diff --git a/ccp/modules/id-management-setup.sh b/ccp/modules/id-management-setup.sh
index c8ea707..0f361dc 100644
--- a/ccp/modules/id-management-setup.sh
+++ b/ccp/modules/id-management-setup.sh
@@ -1,7 +1,7 @@
#!/bin/bash
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)."
OVERRIDE+=" -f ./$PROJECT/modules/id-management-compose.yml"
diff --git a/ccp/mtba-compose.yml b/ccp/mtba-compose.yml
index ad25dd0..bb90059 100644
--- a/ccp/mtba-compose.yml
+++ b/ccp/mtba-compose.yml
@@ -5,20 +5,20 @@ services:
image: samply/mtba:develop
container_name: bridgehead-mtba
environment:
- BLAZE_STORE_URL: http://bridgehead-ccp-blaze:8080/fhir
+ BLAZE_STORE_URL: http://blaze:8080
# NOTE: Aktuell Berechtigungen wie MagicPL!!!
# TODO: Add separate ApiKey to MagicPL only for MTBA!
ID_MANAGER_API_KEY: ${IDMANAGER_UPLOAD_APIKEY}
ID_MANAGER_PSEUDONYM_ID_TYPE: BK_${IDMANAGEMENT_FRIENDLY_ID}_L-ID
- ID_MANAGER_URL: http://bridgehead-id-manager:8080
- PATIENT_CSV_FIRST_NAME_HEADER: ${PATIENT_CSV_FIRST_NAME_HEADER:-"FIRST_NAME"}
- PATIENT_CSV_LAST_NAME_HEADER: ${PATIENT_CSV_LAST_NAME_HEADER:-"LAST_NAME"}
- PATIENT_CSV_GENDER_HEADER: ${PATIENT_CSV_GENDER_HEADER:-"GENDER"}
- PATIENT_CSV_BIRTHDAY_HEADER: ${PATIENT_CSV_BIRTHDAY_HEADER:-"BIRTHDAY"}
- CBIOPORTAL_URL: http://bridgehead-ccp-cbioportal:8080
- MUTATIONS_CSV_SCRIPT_INTERPRETER: "python3"
- NEW_FILES_DIRECTORY: "/app/input"
- PERSIST_DIRECTORY: "/app/persist"
+ ID_MANAGER_URL: http://id-manager:8080/id-manager
+ PATIENT_CSV_FIRST_NAME_HEADER: ${MTBA_PATIENT_CSV_FIRST_NAME_HEADER}
+ PATIENT_CSV_LAST_NAME_HEADER: ${MTBA_PATIENT_CSV_LAST_NAME_HEADER}
+ PATIENT_CSV_GENDER_HEADER: ${MTBA_PATIENT_CSV_GENDER_HEADER}
+ PATIENT_CSV_BIRTHDAY_HEADER: ${MTBA_PATIENT_CSV_BIRTHDAY_HEADER}
+ CBIOPORTAL_URL: http://cbioportal:8080
+ FILE_CHARSET: ${MTBA_FILE_CHARSET}
+ FILE_END_OF_LINE: ${MTBA_FILE_END_OF_LINE}
+ CSV_DELIMITER: ${MTBA_CSV_DELIMITER}
labels:
- "traefik.enable=true"
- "traefik.http.routers.mtba.rule=PathPrefix(`/`)"