Compare commits

..

4 Commits

5 changed files with 57 additions and 23 deletions

View File

@ -24,6 +24,9 @@ This repository is the starting point for any information and tools you will nee
- [BBMRI-ERIC Directory entry needed](#bbmri-eric-directory-entry-needed) - [BBMRI-ERIC Directory entry needed](#bbmri-eric-directory-entry-needed)
- [Directory sync tool](#directory-sync-tool) - [Directory sync tool](#directory-sync-tool)
- [Loading data](#loading-data) - [Loading data](#loading-data)
- [Teiler (Frontend)](#teiler-frontend)
- [Data Exporter Service](#data-exporter-service)
- [Data Quality Report](#data-quality-report)
4. [Things you should know](#things-you-should-know) 4. [Things you should know](#things-you-should-know)
- [Auto-Updates](#auto-updates) - [Auto-Updates](#auto-updates)
- [Auto-Backups](#auto-backups) - [Auto-Backups](#auto-backups)
@ -379,6 +382,37 @@ Normally, you will need to build your own ETL to feed the Bridgehead. However, t
You can find the profiles for generating FHIR in [Simplifier](https://simplifier.net/bbmri.de/~resources?category=Profile). You can find the profiles for generating FHIR in [Simplifier](https://simplifier.net/bbmri.de/~resources?category=Profile).
### Teiler (Frontend)
Teiler is the web-based frontend of the Bridgehead, providing access to its various internal, and external services and components.
To learn how to integrate your custom module into Teiler, please refer to https://github.com/samply/teiler-dashboard.
- To activate Teiler, set the following environment variable in your `<PROJECT>.conf` file:
```bash
ENABLE_TEILER=true
```
### Data Exporter Service
The Exporter is a dedicated service for extracting and exporting Bridgehead data in (tabular) formats such as Excel, CSV, Opal, JSON, XML, ...
- To enable the Exporter service, set the following environment variable in your `<PROJECT>.conf` file:
```bash
ENABLE_EXPORTER=true
```
#### Data Quality Report
To assess the quality and plausibility of your imported data, the Reporter component is pre-configured to generate Excel reports with data quality metrics and statistical analyses. Reporter is part of the Exporter and can be enabled by setting the same environment variable in your `<PROJECT>.conf` file:
```bash
ENABLE_EXPORTER=true
```
For convenience, it's recommended to enable the Teiler web frontend alongside the Exporter to access export and quality control features via a web interface: set the following environment varibles in your `<PROJECT>.conf` file:
```bash
ENABLE_TEILER=true
ENABLE_EXPORTER=true
```
## Things you should know ## Things you should know
### Auto-Updates ### Auto-Updates

View File

@ -1,20 +1,20 @@
-----BEGIN CERTIFICATE----- -----BEGIN CERTIFICATE-----
MIIDNTCCAh2gAwIBAgIUE/wu6FmI+KSMOalI65b+lI3HI4cwDQYJKoZIhvcNAQEL MIIDNTCCAh2gAwIBAgIUFzdpDi1OLdXyogtCsktHFhCILtMwDQYJKoZIhvcNAQEL
BQAwFjEUMBIGA1UEAxMLQnJva2VyLVJvb3QwHhcNMjQwOTE2MTUyMzU0WhcNMzQw BQAwFjEUMBIGA1UEAxMLQnJva2VyLVJvb3QwHhcNMjUwNjEwMTQzNjE1WhcNMzUw
OTE0MTUyNDI0WjAWMRQwEgYDVQQDEwtCcm9rZXItUm9vdDCCASIwDQYJKoZIhvcN NjA4MTQzNjQ1WjAWMRQwEgYDVQQDEwtCcm9rZXItUm9vdDCCASIwDQYJKoZIhvcN
AQEBBQADggEPADCCAQoCggEBAOt1I1FQt2bI4Nnjtg8JBYid29cBIkDT4MMb45Jr AQEBBQADggEPADCCAQoCggEBALpJCWE9Qe19R9DqotdkPV6jfiuJSKI3UYkCWdWG
ays24y4R3WO7VJK9UjNduSq/A1jlA0W0A/szDf8Ojq6bBtg+uL92PTDjYH1QXwX0 nRfkKB6OaY5t3JCHDqaEME9FwSd2nFXhTp5F6snG/K7g8MCLIEzGzuSnrdjGqINq
c7eMo2tvvyyrs/cb2/ovDBQ1lpibcxVmVAv042ASmil3SdqKKXpv3ATnF9I7V4cv zXLfgqnxvQpPR4ARLNNgnKxZaq7m4Q3T/l+QAshK6CnCUWFQ6q5x3g/pZHFP2USd
fwB56FChaGIov5EK+9JOMjTx6oMlBEgUFR6qq/lSqM9my0HYwUFbX2W+nT9EKEIP /G2FtDHX6YK4bHbbnigIPG6PdY2RYy60i30XGdIPBNf82XGkAtPUBz731gHOV5Vg
9UP1eyfRZR3E/+oticnm/cS20BGCbjoYrNgLthXKyaASuhGoElKs8EZ3h9MiI+u0 d+jfAqTwZAhYC2CcNmswFw1H9GrvTI/9KZWKcZNUIqemc0A/FyEyONUM18/vjQ7D
DpR0KpePhAkMLugBrgYWqkMwwD1684LfC4YVQrsLwzo5OW8CAwEAAaN7MHkwDgYD lUwOcQsgAg44QTOUPgqXv3sJPQM5EnGuv3yYV9u6Y2i78M8CAwEAAaN7MHkwDgYD
VR0PAQH/BAQDAgEGMA8GA1UdEwEB/wQFMAMBAf8wHQYDVR0OBBYEFPbXs3g3lMjH VR0PAQH/BAQDAgEGMA8GA1UdEwEB/wQFMAMBAf8wHQYDVR0OBBYEFPrDeNWgtEyZ
1JMe0a5aVbN7lB92MB8GA1UdIwQYMBaAFPbXs3g3lMjH1JMe0a5aVbN7lB92MBYG VM0yeoRZdK2QGjyvMB8GA1UdIwQYMBaAFPrDeNWgtEyZVM0yeoRZdK2QGjyvMBYG
A1UdEQQPMA2CC0Jyb2tlci1Sb290MA0GCSqGSIb3DQEBCwUAA4IBAQBM5RsXb2HN A1UdEQQPMA2CC0Jyb2tlci1Sb290MA0GCSqGSIb3DQEBCwUAA4IBAQAD2S0kqL18
FpC1mYfocXAn20Zu4d603qmc/IqkiOWbp36pWo+jk1AxejyRS9hEpQalgSnvcRPQ laewh+qnyZ0WMq12mLV/Rwll6ZuShCx2uAu3UZuIGWk3l7gG5zlws+i+zbaNcn4o
1hPEhGU+wvI0WWVi/01iNjVbXmJNPQEouXQWAT17dyp9vqQkPw8LNzpSV/qdPgbT HsS3WG9kiNLOMKp8LXGkjErl6RaQr+kb8qgYFTPjOr6v0OdVn6ve9RDNYB5Hd+zE
Z9o3sZrjUsSLsK7A7Q5ky4ePkiJBaMsHeAD+wqGwpiJ4D2Xhp8e1v36TWM0qt2EA 9jAWmS8PfS2AldE4VAd0C4pWTAinhnKGrKdn1YAX5x+LMq1y0lc1Pd4CDgsjD6SS
gySx9isx/jeGGPBmDqYB9BCal5lrihPN56jd+5pCkyXeZqKWiiXFJKXwcwxctYZc 3td7JtenXqCX0mN0XSeck7vvFGa6QpcQoVcN9tRENctHZTwyeGA21IkXylpFPUkE
ADHIiTLLPXE8LHTUJAO51it1NAZ1S24aMzax4eWDXcWO7/ybbx5pkYkMd6EqlKHd LT60k48fNC8TZkBlfvtVGRebpm5krXIKEaVy5LniEpSuOR4hTqsgoQDntBjW4zHA
8riQJIhY4huX GeWQ1wQNTEBX
-----END CERTIFICATE----- -----END CERTIFICATE-----

View File

@ -19,7 +19,7 @@ services:
HTTP_RELATIVE_PATH: "/bbmri-teiler" HTTP_RELATIVE_PATH: "/bbmri-teiler"
teiler-dashboard: teiler-dashboard:
image: docker.verbis.dkfz.de/ccp/samply/teiler-dashboard:test image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
container_name: bridgehead-teiler-dashboard container_name: bridgehead-teiler-dashboard
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"

View File

@ -19,7 +19,7 @@ services:
HTTP_RELATIVE_PATH: "/ccp-teiler" HTTP_RELATIVE_PATH: "/ccp-teiler"
teiler-dashboard: teiler-dashboard:
image: docker.verbis.dkfz.de/ccp/samply/teiler-dashboard:test image: docker.verbis.dkfz.de/cache/samply/teiler-dashboard:develop
container_name: bridgehead-teiler-dashboard container_name: bridgehead-teiler-dashboard
labels: labels:
- "traefik.enable=true" - "traefik.enable=true"

View File

@ -49,8 +49,8 @@ if [ -z "$TRANSFAIR_AUTH" ]; then
fi fi
fi fi
if [ -z "$EXPORTER_USER" ]; then if [ "$ENABLE_EXPORTER" == "true" ] && [ -z "$EXPORTER_USER" ]; then
log "INFO" "Now generating basic auth for the exporter and reporter (see adduser in bridgehead for more information). " log "INFO" "Now generating basic auth for the exporter and reporter (see adduser in bridgehead for more information)."
generated_passwd="$(cat /proc/sys/kernel/random/uuid | sed 's/[-]//g' | head -c 32)" generated_passwd="$(cat /proc/sys/kernel/random/uuid | sed 's/[-]//g' | head -c 32)"
add_basic_auth_user $PROJECT $generated_passwd "EXPORTER_USER" $PROJECT add_basic_auth_user $PROJECT $generated_passwd "EXPORTER_USER" $PROJECT
fi fi