samply
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bridgehead
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411 Commits

Author SHA1 Message Date
tm16-medma e3f7f5d32b Refactor Docker Compose 
- Replaced GUI_HOST with HOST
- Removed NODE_ENV
- Combine init_onco and backend service
- removed node_modules and .svelte-kit volumes
- removed mongodb volumes
- adjusted http_proxy and https_proxy
- adjusted path prefix from oaut2 to oauth2-ovis
- removed network-mode "host" in fhir-transformer service
 2025-04-09 13:43:53 +00:00
tm16-medma 86a2b78d8f corrected a syntax error 2025-04-01 10:57:02 +00:00
tm16-medma cf1ba43d39 refactor: restructure ovis-compose.yml and added MongoDB initialization to sh 
- Removed the traefik service and renamed traefik-forward-auth to ovis- with ovis-traefik-forward-auth the labels, however would need help there as i got no knowledge of how OAuth2 works (Torben initialized that container)
- Updated MongoDB service configuration to include a direct initialization script for user and operation collections in the sh instead of in the compose directly
- Adjusted volume paths to only use the /var/cache/bridgehead/ccp directory
- Adjusted frontend and backend service labels for Traefik routing to not use ports
- Cleaned up unnecessary network definitions and volumes.
- Renamed FHIR Server URL to bridgehead-ccp-blaze:8080/fhir
- Removed redundant entrypoint (python main.py) of fhir transformer
 2025-04-01 10:46:48 +00:00
tm16-medma 3b49faaeb4
Update ovis-compose.yml 
Please ignore the command in mongo :) It will be replaced soon with proper user authentication
 2025-03-26 11:21:58 +01:00
janskiba 5ba9efe8d3 ovis wip 2025-02-12 10:45:48 +00:00
Jan 721627a78f
feat: migrate to new dnpm:dip node (#251) 
* feat: migrate to new dnpm:dip node

* hardcode dnpm connector type to broker

* use `SITE_NAME` for dnpm `LOCAL_SITE`

* host central targets in git

* dnpm: add goettingen to central targets

* dnpm: add uksh to central targets

* dnpm: replace named volumes with fs volumes

* chore: change dnpm images

* chore: pin mysql

* dnpm: Secure endpoints for ETL and p2p communications (#254)

* fix authup redirect (#262)

When a OIDC provider is configured, you'll get redirected to authup by Keycloak which redirects you to the DNPM:DIP. 

Currently the url looks like this: https://myserver/authup//someurl
and produces an error. Manually removing the additional / fixes the issue.

* Whitespace formatting

---------

Co-authored-by: Niklas <niklas@ytvwld.de>
Co-authored-by: Niklas Reimer <niklas@backbord.net>
Co-authored-by: Martin Lablans <6804500+lablans@users.noreply.github.com>
 2025-02-05 13:24:28 +01:00
patrickskowronekdkfz 1003cd73cf
fix: changed ccp_ppi to use IDMANAGEMENT_FRIENDLY_ID instead of SITE_NAME (#259) 2025-01-21 09:30:20 +01:00
patrickskowronekdkfz 3d1105b97c
Update: Blaze to version 0.31 (#260) 2025-01-21 09:28:47 +01:00
Jan 5c28e704d2
fix: remove `restart: always` in compose files (#261) 2025-01-21 09:27:27 +01:00
Enola Knezevic 45aefd24e5
renamed exporter API key to EXPORTER_API_KEY (#252) 2024-12-06 11:27:38 +01:00
patrickskowronekdkfz 122ff16bb1
fix: use verbis cache image instead of docker-hub (#250) 2024-11-12 09:58:17 +01:00
djuarezgf 967e45624e
Add exporter configuration to focus (#249) 2024-11-05 15:46:00 +01:00
Tobias Kussel 8cd5b93b95
Merge pull request #237 from samply/feat/ccp-ppi 
Feat/ccp ppi
 2024-11-05 13:59:01 +01:00
Jan 52c24ee6fa
fix(fhir2sql): add the postgres connection string to focus (#245) 2024-11-05 13:34:36 +01:00
davidmscholz 26712d3567
feat: add and set FOCUS_ENDPOINT_TYPE to support fhir2sql (#244) 
* add and set FOCUS_ENDPOINT_TYPE

Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>

---------

Co-authored-by: davidmscholz <david.scholz@dkfz-heidelberg.de>
Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>
 2024-10-30 15:21:15 +01:00
Pierre Delpy cf5230963c
feat: add focus tags in ccp and bbmri (#240) 
Co-authored-by: p.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>
 2024-10-21 11:00:01 +02:00
patrickskowronekdkfz 3312ca8a64
feat: added blaze cql cache (#236) 2024-10-10 14:34:28 +02:00
Patrick Skowronek 23981062bb Move ppi to id-management 2024-10-10 13:27:24 +02:00
Patrick Skowronek 8e7fe6851e fix: use correct mainzelliste api key 2024-10-10 13:11:43 +02:00
Patrick Skowronek 760d599b7c Add CCP-PPI 2024-10-10 12:56:36 +02:00
Torben Brenner eb2955872f fix: allow usage of centraxx interface without login 
Before this change CentraXX was redirected to the
central login servers then interacting with the id-management
 2024-10-01 13:30:23 +02:00
p.delpy@dkfz-heidelberg.de f0bdb5c146 fix: re-add modules 2024-09-12 09:25:38 +02:00
Pierre Delpy c585322ee7
Merge pull request #226 from samply/main 
Update Develop from Main
 2024-09-12 08:22:17 +02:00
davidmscholz ed8dacaa59
Fix fhir2sql db pw generation (#219) 
fix postgresql password generation so that the password does not contain problematic characters that mess with the connection string
 2024-08-29 09:15:22 +02:00
Jan 3fe781255b
feat: Configure beam-connect to trust ds-orchestrator beam proxy (#220) 2024-08-29 09:07:50 +02:00
Torben Brenner 6228cb3762 fix: specify host for id-management login 
Otherwise traefik will match the route with the one specified in datashield-compose.yml
 2024-08-19 17:09:10 +02:00
Torben Brenner 33843fe961 fix: switch id-management to keycloak 2024-08-19 14:43:21 +02:00
Tobias Kussel 9c941853bd
Merge pull request #196 from samply/new-dashboard-backend 
Add new/additional dashboard backend
 2024-08-01 10:05:32 +02:00
janskiba 83b653e0c3 feat: Configure beam-connect to trust ds-orchestrator beam proxy 2024-07-31 07:18:30 +00:00
Tobias Kussel 2e5aeabca8 Rename fhir2sql module files 2024-07-30 07:44:47 +00:00
Tobias Kussel af44b6b446 Fix depends_on syntax 2024-07-30 07:40:49 +00:00
davidmscholz 5ed07423f3 fix dashboard-compose 2024-07-30 09:24:07 +02:00
Martin Lablans 4ab10ff71d In ENVIRONMENT=production, use main tag for Samply.Beam. 2024-07-29 13:50:30 +02:00
davidmscholz df08d67839 add optional dashboard module 2024-07-29 10:45:00 +02:00
Torben Brenner 023be58528
Merge pull request #195 from samply/feature/caching-ccp 
add caching in focus
 2024-07-26 14:07:15 +02:00
Pierre Delpy d316f1c798 add caching in focus 2024-07-24 13:56:53 +02:00
djuarezgf 293810f254 Added: exporter with blaze-secondary 2024-07-18 14:06:47 +02:00
p.delpy@dkfz-heidelberg.de 6b4480c54b workaround: add second blaze 2024-07-18 14:06:47 +02:00
Pierre Delpy b36c9ae03e
Fix patientlisturl in obds2fhir-rest-compose.yml 2024-07-16 10:49:23 +02:00
Pierre Delpy 91dc31d039 fix: use correct ID management flag for oBDS2FHIR 2024-07-08 14:31:09 +02:00
janskiba 9e4bc214ce fix: Fix traefik label for oauth2 redirect 2024-07-03 13:01:02 +00:00
Pierre Delpy 2ee8e0185a feature: upgrade to oBDS2FHIR 2024-07-02 08:57:15 +02:00
Martin Lablans f28e3c2cd2 Remove unnecessary default values 2024-07-01 15:19:44 +02:00
Martin Lablans 91ff51304b Add new dashboard backend 2024-07-01 15:14:38 +02:00
Torben Brenner f7751b9d92 fix: set blaze to version 0.28 
The 0.28 release is not downgradeable, therefore switching again to 0.28
 2024-06-28 14:29:56 +02:00
Torben Brenner 0db7df1440
Update docker-compose.yml 2024-06-28 13:57:30 +02:00
janskiba e72c996952 feat: allow setting focus retry count and increase default 2024-06-13 07:29:54 +00:00
Martin Lablans 4fc53c00bf Fix typo 2024-06-11 08:41:35 +02:00
Patrick Skowronek 033da484d1 switch focus of ccp to tag 2024-05-21 16:16:40 +02:00
Torben Brenner 29c2b5ef69 refactor: Ensure Mainzelliste returns SSL in Responses 
Before, the Mainzelliste would always use http instead of https then
referring to it self in responses
 2024-04-26 11:29:38 +02:00