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Directory sync: token login and cron change

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The Directory team have requested that we allow token login to the
Directory, where a user uses LSAAI credentials to obtain a token from
the Directory, and then uses this to authenticate Directory sync. This
has been implemented via an environment variable, in an analogous way to
the already existing username/password method.

The default start time for the Directory sync has been shifted to 22:30,
to prevent conflicts with the Bridgehead auto-update.

Relevant changes have been made to the documentation.
This commit is contained in:
DavidCroftDKFZ
2025-10-21 15:50:43 +02:00
parent 0838851993
commit 05521303c8
2 changed files with 12 additions and 4 deletions
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13
README.md
View File

@@ -318,6 +318,12 @@ To enable it, you will need to explicitly set the username and password variable
DS_DIRECTORY_USER_NAME=your_directory_username DS_DIRECTORY_USER_NAME=your_directory_username
DS_DIRECTORY_USER_PASS=your_directory_password DS_DIRECTORY_USER_PASS=your_directory_password
``` ```
Alternatively, if you have obtained a token from the Directory, you can insert the following into the configuration file:
```
DS_DIRECTORY_USER_TOKEN=your_directory_token
```
If you don't supply any authentification information (either login credentials or a token), Directory sync will not start.
Please contact your National Node or Directory support (directory-dev@helpdesk.bbmri-eric.eu) to obtain these credentials. Please contact your National Node or Directory support (directory-dev@helpdesk.bbmri-eric.eu) to obtain these credentials.
The following environment variables can be used from within your config file to control the behavior of Directory sync: The following environment variables can be used from within your config file to control the behavior of Directory sync:
@@ -325,12 +331,13 @@ The following environment variables can be used from within your config file to
| Variable | Purpose | Default if not specified | | Variable | Purpose | Default if not specified |
|:-----------------------------------|:---------------------------------------------------------------------------------------------------------------------------------------------------------------------|:---------------------------------------| |:-----------------------------------|:---------------------------------------------------------------------------------------------------------------------------------------------------------------------|:---------------------------------------|
| DS_DIRECTORY_URL | Base URL of the Directory | https://directory-backend.molgenis.net | | DS_DIRECTORY_URL | Base URL of the Directory | https://directory-backend.molgenis.net |
| DS_DIRECTORY_USER_NAME | User name for logging in to Directory **Mandatory** | | | DS_DIRECTORY_USER_NAME | User name for logging in to Directory | |
| DS_DIRECTORY_USER_PASS | Password for logging in to Directory **Mandatory** | | | DS_DIRECTORY_USER_PASS | Password for logging in to Directory | |
| DS_DIRECTORY_USER_TOKEN | Token for logging in to Directory | |
| DS_DIRECTORY_DEFAULT_COLLECTION_ID | ID of collection to be used if not in samples | | | DS_DIRECTORY_DEFAULT_COLLECTION_ID | ID of collection to be used if not in samples | |
| DS_DIRECTORY_ALLOW_STAR_MODEL | Set to 'True' to send star model info to Directory | True | | DS_DIRECTORY_ALLOW_STAR_MODEL | Set to 'True' to send star model info to Directory | True |
| DS_FHIR_STORE_URL | URL for FHIR store | http://bridgehead-bbmri-blaze:8080 | | DS_FHIR_STORE_URL | URL for FHIR store | http://bridgehead-bbmri-blaze:8080 |
| DS_TIMER_CRON | Execution interval for Directory sync, [cron](https://crontab.guru) format | 0 22 * * * | | DS_TIMER_CRON | Execution interval for Directory sync, [cron](https://crontab.guru) format | 30 22 * * * |
| DS_IMPORT_BIOBANKS | Set to 'True' to import biobank metadata from Directory | True | | DS_IMPORT_BIOBANKS | Set to 'True' to import biobank metadata from Directory | True |
| DS_IMPORT_COLLECTIONS | Set to 'True' to import collection metadata from Directory | True | | DS_IMPORT_COLLECTIONS | Set to 'True' to import collection metadata from Directory | True |

3
bbmri/modules/directory-sync-compose.yml
View File

@@ -7,7 +7,8 @@ services:
DS_DIRECTORY_URL: ${DS_DIRECTORY_URL:-https://directory.bbmri-eric.eu} DS_DIRECTORY_URL: ${DS_DIRECTORY_URL:-https://directory.bbmri-eric.eu}
DS_DIRECTORY_USER_NAME: ${DS_DIRECTORY_USER_NAME} DS_DIRECTORY_USER_NAME: ${DS_DIRECTORY_USER_NAME}
DS_DIRECTORY_USER_PASS: ${DS_DIRECTORY_USER_PASS} DS_DIRECTORY_USER_PASS: ${DS_DIRECTORY_USER_PASS}
DS_TIMER_CRON: ${DS_TIMER_CRON:-0 22 * * *} DS_DIRECTORY_USER_TOKEN: ${DS_DIRECTORY_USER_TOKEN}
DS_TIMER_CRON: ${DS_TIMER_CRON:-30 22 * * *}
DS_DIRECTORY_ALLOW_STAR_MODEL: ${DS_DIRECTORY_ALLOW_STAR_MODEL:-true} DS_DIRECTORY_ALLOW_STAR_MODEL: ${DS_DIRECTORY_ALLOW_STAR_MODEL:-true}
DS_DIRECTORY_MOCK: ${DS_DIRECTORY_MOCK} DS_DIRECTORY_MOCK: ${DS_DIRECTORY_MOCK}
DS_DIRECTORY_DEFAULT_COLLECTION_ID: ${DS_DIRECTORY_DEFAULT_COLLECTION_ID} DS_DIRECTORY_DEFAULT_COLLECTION_ID: ${DS_DIRECTORY_DEFAULT_COLLECTION_ID}