Commit Graph

1026 Commits

Author SHA1 Message Date
Tim Schumacher
fd013232f5 Cache public organoid dashboard SQL query (#309) 2025-05-23 15:26:59 +02:00
DavidCroftDKFZ
eb52554892 docs: add faq (#288) 2025-05-22 18:10:40 +02:00
DavidCroftDKFZ
08c695e960 docs: Control import from Directory, improve README (#297) 2025-05-22 18:03:01 +02:00
DavidCroftDKFZ
1513fe1c6c Added section relating to clearing data from Blaze (#303) 2025-05-22 18:01:43 +02:00
djuarezgf
af08a9fb08 chore: change some teiler variables (#307) 2025-05-20 16:24:24 +02:00
djuarezgf
b95f0efbe7 fix: add own url to teiler dashboard to make it offline compatible (#305) 2025-05-20 09:39:14 +02:00
Torben Brenner
99567e2b40 fix: Ensure transfair can properly communicate with the fhir server for requests (#304) 2025-05-19 17:01:37 +02:00
Jan
96ff6043a1 feat: allow transfair to talk to services behind the proxy (#296) 2025-05-09 13:52:33 +02:00
Jan
844ce3386e chore(transfair): update transfair config (#298) 2025-05-09 11:30:26 +02:00
Martin Lablans
9782bf66b6 Code review: Move to /tmp/bridgehead/... 2025-05-08 09:18:02 +02:00
Tim Schumacher
87f0e8ad7f Use temp directory for secret sync cache 2025-05-08 09:18:02 +02:00
Jan
7365be3e7b chore(transfair): add option to disable tls verification (#295) 2025-04-17 12:01:45 +02:00
Enola Knezevic
c5d08c50a4 chore: add BBMRI ERIC acceptance env (#294) 2025-04-16 15:37:55 +02:00
Jan
72ecaadba8 fix: ssh-tunnel-setup.sh (#293) 2025-04-15 11:36:20 +02:00
Jan
2ddd535794 feat: ssh tunnel (#292)
* Added ccp module for a ssh tunnel

Usage details under https://github.com/samply/ssh-tunnel

* chore: update ssh-tunnel image to harbor

* feat: ssh tunnel support diffrent port

* chore: fix indentation

* chore: move to top level modules

* docs: add ssh-tunnel docs

---------

Co-authored-by: Tobias Kussel <tobias.kussel@dkfz-heidelberg.de>
2025-04-14 10:45:15 +02:00
Jan
973547c322 chore(transfair): add new gw option (#291) 2025-04-11 08:37:31 +02:00
Jan
6b649c9233 feat: expose transfair via traefik (#290)
Note: Requires a bridgehead install to generate the basic auth user
2025-04-09 13:19:52 +02:00
Tim Schumacher
3144ee5214 Fix GitLab token syncing for BBMRI 2025-03-31 11:08:59 +02:00
janskiba
68804dc71b feat: add transfair setup to ccp 2025-03-26 13:11:43 +01:00
janskiba
e5aebfe382 chore!: update transfair config 2025-03-26 13:11:43 +01:00
Torben Brenner
6f3aba1eaa feat: support self-signed cert on ttp (#283) 2025-03-12 15:45:55 +01:00
Jan
82ced89b33 chore: unify blaze versioning and upgrade to 0.32 (#277) 2025-03-12 12:52:00 +01:00
Martin Lablans
5d94bac0e2 Mount queries_to_cache.conf readonly (#282) 2025-03-10 16:03:05 +01:00
Tim Schumacher
83555540f5 chore: update central Secret Sync proxy ID (#280) 2025-03-10 12:08:19 +01:00
Pierre Delpy
e396e00178 Fix/ccp cql cache (#279)
* fix: adapt focus caching to new cql and add focus caching for cce and itcc

---------

Co-authored-by: p.delpy@dkfz-heidelberg.de <p.delpy@dkfz-heidelberg.de>
2025-03-07 12:20:38 +01:00
Tim Schumacher
ecb29830e4 Send the origin of /etc/bridgehead repo to Secret Sync
This is to anticipate an upcoming change in Secret Sync that will allow it to support multiple GitLab servers, e.g. verbis GitLab and BBMRI GitLab.
2025-03-05 11:04:22 +01:00
Torben Brenner
98121c17e8 Make Codeowners Rule apply to all Files in Repo 2025-02-20 17:28:38 +01:00
Torben Brenner
e38511e118 Add Codeowners File 2025-02-20 17:20:54 +01:00
Pierre Delpy
8334fac84d fix: use correct obds2fhir-rest image
---------

Co-authored-by: Pierre Delpy <p.delpy@dkfz-heidelberg.de>
2025-02-20 13:48:10 +01:00
Torben Brenner
8000356b57 docs: explicitly clone main branch (#269) 2025-02-07 11:21:43 +01:00
Torben Brenner
74d8e68d96 Merge pull request #258 from samply/feat/routine-connector
feat: transFAIR
2025-02-07 10:39:54 +01:00
Torben Brenner
c568a56651 refactor: set transfair log to info 2025-02-07 10:30:43 +01:00
Torben Brenner
8384143387 fix: make transfair reach the internal blaze stores 2025-02-07 09:17:17 +01:00
Torben Brenner
8fe73a8123 fix: support mode without ttp 2025-02-07 09:17:07 +01:00
Torben Brenner
bca63e82a9 fix: don't use return in transfairSetup
For some reason the return not only exits transfairSetup, but also the
bridgehead script
2025-02-06 15:43:37 +01:00
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
Jan
e08ff92401 Merge pull request #268 from samply/main
Main backport
2025-02-05 08:45:35 +01:00
Jan
e3553370b6 feat: unify version handeling (#265) 2025-01-29 13:17:59 +01:00
Jan
1ad73d8f82 fix: properly load oidc secrets (#267) 2025-01-29 10:59:27 +01:00
Tobias Kussel
0b6fa439ba Merge pull request #266 from samply/fix/docker-hub-link
Fixed Docker Hub URL list link
2025-01-29 09:52:26 +01:00
Martin Lablans
615990b92a Use secret-sync for gitpassword (#257)
---------

Co-authored-by: Tim Schumacher <tim@tschumacher.net>
Co-authored-by: Jan <59206115+Threated@users.noreply.github.com>
Co-authored-by: Tim Schumacher <tim.schumacher@dkfz-heidelberg.de>
2025-01-28 14:53:49 +01:00
Tobias Kussel
db950d6d87 Fixed Docker Hub URL list link 2025-01-28 08:59:57 +00:00
patrickskowronekdkfz
6a71da3dd1 docs: documentation for changing your configuration repository access token (#256) 2025-01-27 10:49:10 +01:00
patrickskowronekdkfz
138a1fa5f1 fix: changed ccp_ppi to use IDMANAGEMENT_FRIENDLY_ID instead of SITE_NAME (#259) 2025-01-27 10:49:10 +01:00
patrickskowronekdkfz
39a87bcf61 Update: Blaze to version 0.31 (#260) 2025-01-27 10:49:10 +01:00
Jan
655d0d24c7 fix: remove restart: always in compose files (#261) 2025-01-27 10:49:10 +01:00
janskiba
fa0d9fb8b4 restrict additional blaze memory usage 2025-01-24 09:23:08 +00:00
janskiba
139fcecabe redo transfair setup 2025-01-23 13:27:42 +00:00
janskiba
2058a7a5c9 update image url 2025-01-23 12:06:43 +00:00
janskiba
47364f999e wip: routine connector 2025-01-21 13:55:08 +00:00