Commit Graph
1102 Commits
Author SHA1 Message Date
tm16-medmaandtm16-medma 50d66d6b3c Update ovis-compose.yml for backend image and import settings 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 52430081d4 Add Traefik labels for ovis-frontend routing 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 82601fc235 Clean up Traefik router settings in ovis-compose.yml
Removed unnecessary Traefik router configurations for compatibility.
2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 98ae28a83b Add Traefik labels for ovis-frontend routing 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 64be3750aa Add Traefik labels for ovis-backend services 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma aa9b163dc1 Add Traefik labels for ovis-frontend-ccp routes 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 5afebd6d3c Add OVIS_PUBLIC_BASE_PATH environment variable 2026-07-14 15:36:31 +02:00
Skiba Janandtm16-medma 8ff90a02d2 fix treafik routers 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 76c9e88f0c Refactor ovis-compose.yml to add new services 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma bad60a964d Refactor OVIS setup script for MongoDB initialization 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 9b81eb7dbb Refactor ovis-compose.yml for latest OVis version 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 375fff1beb adjusted traefik parameters 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma a7913f3c4f 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
2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma e1af2c7191 corrected a syntax error 2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 54456b14f7 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
2026-07-14 15:36:31 +02:00
tm16-medmaandtm16-medma 732c0ab250 Update ovis-compose.yml
Please ignore the command in mongo :) It will be replaced soon with proper user authentication
2026-07-14 15:36:31 +02:00
janskibaandtm16-medma f6794f554c ovis wip 2026-07-14 15:36:31 +02:00
Tim SchumacherandGitHub d7c01594de Don't use wildcard in sudoers to support sudo-rs (#392) 2026-06-30 15:28:25 +02:00
Enola KnezevicandGitHub f549f95b2c added CQL_FLAVOUR (#391) 2026-06-29 11:16:57 +02:00
Enola KnezevicandGitHub b7a8646e91 latest blaze in acceptance and 1.8 in production (#388) 2026-06-17 13:24:32 +02:00
Tobias KusselandGitHub 54291c06f7 Fix spelling of 'Charite' to 'Charité' in DNPM targets (#389) 2026-06-02 15:03:35 +02:00
Enola KnezevicandGitHub e3a8cf790c use latest blaze in test (#387) 2026-05-29 15:28:04 +02:00
afigueroaDkfzandGitHub 4211528f56 fix: make url dynamic based on host configuration (#386) 2026-05-26 16:16:06 +02:00
Pierre DelpyandGitHub 112be2a2d6 Fix/pscc lens local (#385)
* fix: deployment of local pscc lens instance
2026-05-22 12:58:17 +02:00
Martin JurkandGitHub 47b793668a Feature/ml itcc (#380)
* sites moved to etc itcc.comf

* mainzelliste test

* volume

* fix image

* db name chaged

* ingest component test

* clean up

* maizelliste env db

* test server ip

* beam sockets

* teswt socket and task

* secure db and ml

* refactor and patient endpoints

* partner id

* new refactor and encription key generation

* db deleted

* keyset to var/
2026-05-12 13:56:35 +02:00
Radovan TomášikandGitHub cbf75f632f Fix image reference for data-quality-agent service (#381) 2026-05-11 12:55:44 +02:00
Patrick SkowronekandGitHub 2b7e3ef3a1 fix: replace old dpc link (#384) 2026-05-11 11:35:32 +02:00
JanandGitHub 7a8664a636 fix project check in secret_sync_gitlab_token (#378) 2026-04-10 11:38:28 +02:00
71b25fe490 feat: add Data Quality Agent configuration and setup (#373)
* feat: add Data Quality Agent configuration and setup

* fix: correct environment variable name in Data Quality Agent configuration

* feat: update Data Quality Agent configuration and setup instructions

* feat: update Data Quality Agent setup and documentation

* feat: add volume configuration for agent data in Data Quality Agent compose file

* feat: update volume configuration for Data Quality Agent in compose file

* Update README.md

Co-authored-by: Tobias Kussel <TKussel@users.noreply.github.com>

---------

Co-authored-by: Tobias Kussel <TKussel@users.noreply.github.com>
2026-04-07 12:48:29 +02:00
Pierre DelpyandGitHub bbda99254f feature: add osiris2fhir in cce and minor fixes (#374) 2026-03-17 15:54:25 +01:00
Pierre DelpyandGitHub c1de9b8314 WIP: enable osiris2fhir in PSCC for GR (#372)
enable osiris2fhir in PSCC for GR
2026-02-24 12:09:39 +01:00
DavidCroftDKFZandGitHub 9d3ec957a2 Activate Directory token login (#371)
Right now, Directory sync will only be activated if a username has been
specified. It also needs to run if a login token has been specified,
hence the change in this commit.
2026-02-20 09:27:47 +01:00
Martin JurkandGitHub 7a9f80537b sites moved to etc itcc.comf (#369) 2026-02-10 16:04:33 +01:00
Pierre DelpyandGitHub bff06a6bb0 fix kr deployment (#370) 2026-02-10 11:21:36 +01:00
Martin JurkandGitHub 6923ead6ce feat: itcc lens2 (#365) 2026-01-28 14:28:09 +01:00
Manoj WaikarandGitHub 7dc9e2e663 Changes to make deployed CCE explorer work properly. (#368)
* Changes to make deployed CCE explorer work properly.

In the lens environment section in services:
- add PUBLIC_SPOT_URL value
2026-01-13 10:42:10 +01:00
JanandGitHub 85cfc2514d update beam proxy server used for oauth enrollment (#366) 2025-12-11 11:33:29 +01:00
Enola KnezevicandGitHub dd3387c2f1 test version blaze (#364)
This is the one we need urgently
2025-12-01 12:54:57 +01:00
Enola KnezevicandGitHub a5120ba75b obfuscate BBMRI ERIC way, test blaze version (#363) 2025-12-01 12:50:07 +01:00
Manoj WaikarandGitHub d0c87b40a6 Use the cce-explorer:main image from docker hub (instead of ghcr). (#362) 2025-11-21 14:52:42 +01:00
Pierre DelpyandGitHub 57f49ab5fc feat: migrate pscc to orange cloud broker (#361) 2025-11-21 10:42:21 +01:00
Manoj WaikarandGitHub e2569f4737 Use the main image name for cce explorer. (#360)
- instead of pr1 name
2025-11-20 14:34:33 +01:00
Manoj WaikarandGitHub 56a8aac326 Add APP_spot_KEY env var under the beam-proxy section. (#358) 2025-11-19 09:33:18 +01:00
Niklas ReimerandGitHub ab6e05826f feat(dnpm): set timezone to Europe/Berlin (#359) 2025-11-12 10:25:20 +01:00
394dcc2567 Directory sync: token login and cron change (#351)
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.

Co-authored-by: Torben Brenner <76154651+torbrenner@users.noreply.github.com>
Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>
Co-authored-by: Martin Lablans <6804500+lablans@users.noreply.github.com>
2025-11-11 09:43:08 +01:00
djuarezgfandGitHub 58d3e6487c feat: add nNGM project (#340) 2025-11-06 16:47:50 +01:00
Pierre DelpyGitHubp.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>Jan
230ff1debb feat: add PSCC
* add pscc and prepare lens2 deployment
---------

Co-authored-by: p.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>
Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>
2025-11-05 15:18:00 +01:00
DavidCroftDKFZandGitHub 6dea7c8fef Directory sync: inherit host timezone (#354)
Directory sync needs to be able to launch at specific times of day, and in order to do this in a predictable way, the timezone used inside the Docker container should be the same as the host. To do this, two files need to be mounted from the host. One file contains information about the time zone, the other file contains the file zone name.
2025-11-05 11:02:26 +01:00
djuarezgfandGitHub 66a1bd1122 docs: add initial documentation for Samply.Exporter and Samply.Teiler (#350) 2025-10-20 11:16:41 +02:00
Tim SchumacherandTim Schumacher 85957b3d48 Update focus tags: no project specific images anymore 2025-10-16 13:39:58 +02:00