248 Commits

Author	SHA1	Message	Date
djuarezgf	3a6520a668	Update ccp/modules/mtba.md ... Co-authored-by: Martin Lablans <6804500+lablans@users.noreply.github.com>	2024-02-27 12:44:32 +01:00
janskiba	e2f31b6eeb	Make sure copy works and the correct owner is set	2024-02-27 12:43:34 +01:00
janskiba	452946aa04	Add all sites	2024-02-27 12:43:34 +01:00
janskiba	5c7da0d40d	Auto generate mappings	2024-02-27 12:43:34 +01:00
juarez	77145277de	Add ccp to /var/cache/bridgehead/* volumes	2024-02-27 12:43:34 +01:00
lablans	9cdcf2afb8	Rewrite comments	2024-02-27 12:43:34 +01:00
lablans	13a74e5dab	Move exporter db to /var/cache/bridgehead	2024-02-27 12:43:34 +01:00
lablans	c33726d385	Exporter cache	2024-02-27 12:43:34 +01:00
lablans	f38d9f8c19	Rework commented sections	2024-02-27 12:43:34 +01:00
lablans	b5ca5ea4a7	Autogenerate maps for Opal's beam-connect. To be completed by @Threated with a map-generator in the script.	2024-02-27 12:43:34 +01:00
lablans	862e452f3c	Cache opal in /var/cache/bridgehead	2024-02-27 12:43:34 +01:00
juarez	4aa8f0f3ba	Bugfix: Add version in every docker compose file	2024-02-27 12:43:33 +01:00
juarez	ccf0b91f17	#!/bin/bash -e	2024-02-27 12:43:33 +01:00
juarez	720783249d	Bugfix: LDM_AUTH instead of LDM_PASSWORD	2024-02-27 12:43:33 +01:00
juarez	2b3eabe95c	Rename Teiler Backend, Teiler Dashboard and Teiler Orchestrator	2024-02-27 12:43:33 +01:00
juarez	14aece46f7	Add site to exporter and reporter	2024-02-27 12:43:33 +01:00
juarez	ff1f7904ad	Add forward proxy to teiler-core	2024-02-27 12:43:33 +01:00
juarez	8d38adc91e	Bugfix: mtba labels	2024-02-27 12:43:33 +01:00
juarez	cfc3c7c90e	Bugfix: exporter	2024-02-27 12:43:33 +01:00
juarez	765613b87f	Bugfix: MTBA path prefix	2024-02-27 12:43:32 +01:00
juarez	4b0b17424f	Comment Keycloak volume	2024-02-27 12:43:32 +01:00
juarez	f26a8f7a71	Fix comment in login-compose.yml	2024-02-27 12:43:32 +01:00
juarez	973b5828f6	Remove old comment of exporter-setup.sh	2024-02-27 12:43:32 +01:00
juarez	839e7a4518	Comment on datashield volume	2024-02-27 12:43:32 +01:00
juarez	6cfb42dc9b	Comment on export and report volumes	2024-02-27 12:43:32 +01:00
juarez	5d8bec53c0	Bugfix: JAVA_OPTS for exporter	2024-02-27 12:43:32 +01:00
juarez	c52975f204	Add mtba module documentation	2024-02-27 12:43:32 +01:00
juarez	957fa64ce9	Add teiler-ui module documentation	2024-02-27 12:43:32 +01:00
janskiba	b4805af0a1	Add some docs about beam-connect	2024-02-27 12:43:31 +01:00
juarez	e3b8a7369b	Add login module documentation	2024-02-27 12:43:31 +01:00
juarez	adeaf433dc	Add Exporter module documentation	2024-02-27 12:43:31 +01:00
juarez	846e9c23a7	Add DataSHIELD module documentation	2024-02-27 12:43:31 +01:00
juarez	bb7451d8c3	Add JAVA_OPTS to reporter and exporter	2024-02-27 12:43:31 +01:00
juarez	7ed24f667d	Export and QB Curl templates	2024-02-27 12:43:31 +01:00
juarez	d97ac56126	Generate exporter api key automatically	2024-02-27 12:43:31 +01:00
juarez	e7f6c0b1a0	Add default language to ccp	2024-02-27 12:43:31 +01:00
juarez	c4c4f743d2	Remove updater cron of teiler-core	2024-02-27 12:43:31 +01:00
juarez	be9adcbfa2	Remove clean temp files configuration of exporter	2024-02-27 12:43:30 +01:00
juarez	10a362c237	Add explanation why is the volume of exporter-db currently so important for us.	2024-02-27 12:43:30 +01:00
juarez	75c86b79e8	Add Teiler Admin to Keycloak	2024-02-27 12:43:30 +01:00
juarez	a6443a6857	Remove IS_DKTK_SITE	2024-02-27 12:43:30 +01:00
juarez	f3745b973a	User default user rstudio in rstudio	2024-02-27 12:43:30 +01:00
Martin Lablans	50d28d293f	Generate DATASHIELD_CONNECT_SECRET automatically	2024-02-27 12:43:30 +01:00
Martin Lablans	44415369cc	Update ccp/modules/datashield-compose.yml	2024-02-27 12:43:30 +01:00
Martin Lablans	9b8331ed28	Update ccp/modules/datashield-compose.yml	2024-02-27 12:43:30 +01:00
Martin Lablans	73d969e374	Use LDM_PASSWORD for all admin passwords	2024-02-27 12:43:30 +01:00
juarez	840096d1d5	Enable only if true	2024-02-27 12:43:29 +01:00
juarez	43c45f0628	Remove todo in rstudio	2024-02-27 12:43:29 +01:00
juarez	e182e2fbe6	Remove unnecessary version of docker-compose.override files	2024-02-27 12:43:23 +01:00
juarez	c8bafb2461	R-Server rock-base:6.3	2024-02-27 12:42:38 +01:00
juarez	0866cacc5a	User postgres if docker.verbis.dkfz.de	2024-02-27 12:42:38 +01:00
juarez	a1e76a61b8	Remove ports of beam-connect in datashield-compose.yml	2024-02-27 12:42:38 +01:00
juarez	09aa33c912	Generate passwords only if modules are enabled	2024-02-27 12:42:38 +01:00
juarez	36ac8d41c8	Add http scheme to exporter	2024-02-27 12:42:37 +01:00
janskiba	c003999721	Migrate to new app key syntax	2024-02-27 12:42:37 +01:00
juarez	50360d3f41	update new broker	2024-02-27 12:42:37 +01:00
juarez	5148e3382d	Add parameter LOG_FHIR_VALIDATION to exporter	2024-02-27 12:42:37 +01:00
juarez	2d7d1d73b3	Add reporter	2024-02-27 12:42:37 +01:00
janskiba	20c65336e6	Switch to `no-auth` branch of beam-connect	2024-02-27 12:42:37 +01:00
janskiba	276f886546	secrets are readonly by default	2024-02-27 12:42:37 +01:00
janskiba	bc239c0b02	change to dockerhub image	2024-02-27 12:42:37 +01:00
janskiba	6438fc5f4e	Change beam-connect version and load opal cert	2024-02-27 12:42:37 +01:00
janskiba	f2f48869af	Change cert permission and location	2024-02-27 12:42:36 +01:00
juarez	e9e1ce5a65	ccp.conf in teiler-core as secret	2024-02-27 12:42:36 +01:00
juarez	687dbba383	Add opal certificate	2024-02-27 12:42:36 +01:00
juarez	5e376b17ad	Remove unnecessary volumes	2024-02-27 12:42:36 +01:00
juarez	04cf5128b0	Remove mongo db	2024-02-27 12:42:36 +01:00
juarez	43ab59563c	Add Opal Password in Exporter	2024-02-27 12:42:36 +01:00
Martin Lablans	996f53a164	expose beam connect ports	2024-02-27 12:42:36 +01:00
Martin Lablans	b5ce188842	Fix beam connect app id	2024-02-27 12:42:36 +01:00
Martin Lablans	325ae1d574	beam connect and move beam-connect config	2024-02-27 12:42:36 +01:00
juarez	68782d1c32	Experiment	2024-02-27 12:42:35 +01:00
juarez	dfde7c18ff	Experiment	2024-02-27 12:42:35 +01:00
juarez	0b1e0474d7	Add DataSHIELD	2024-02-27 12:42:35 +01:00
juarez	72255e6211	Bugfix: cross origins of exporter	2024-02-27 12:42:35 +01:00
juarez	32de51eefb	Merge id-management-setup with main	2024-02-27 12:42:35 +01:00
juarez	0cfe1d3617	Change salt string for exporter and login	2024-02-27 12:42:35 +01:00
juarez	fe07c63f36	Adapt teiler-ui to traefik	2024-02-27 12:42:35 +01:00
juarez	3a91259a8a	Add keycloak teiler app to teiler-ui	2024-02-27 12:42:35 +01:00
juarez	4bbd2a15fe	Change volume names for teiler components	2024-02-27 12:42:35 +01:00
juarez	0a17bbc81f	Add stripprefix to teiler-ui	2024-02-27 12:42:35 +01:00
juarez	c794508880	Add stripprefix to teiler-core	2024-02-27 12:42:34 +01:00
juarez	3e0bf38018	Add forward strategy to teiler-core	2024-02-27 12:42:34 +01:00
juarez	e2d109558d	Add forward strategy to teiler-core	2024-02-27 12:42:34 +01:00
juarez	9299a201a6	Deactivate traffik for mtba	2024-02-27 12:42:34 +01:00
juarez	c9b1975c9e	Tidy teiler and mtba volumes	2024-02-27 12:42:34 +01:00
juarez	17f52a7907	Add Teiler Core	2024-02-27 12:42:34 +01:00
juarez	4d1a9bb701	Add Endpoint for Teiler	2024-02-27 12:42:34 +01:00
juarez	efc04cea4f	Update Teiler Core config	2024-02-27 12:42:34 +01:00
juarez	8fe03a6cd2	Add original Keycloak config	2024-02-27 12:42:34 +01:00
p.delpy@dkfz-heidelberg.de	c66dac9881	update keykloak config	2024-02-27 12:42:33 +01:00
p.delpy@dkfz-heidelberg.de	38c7f3c24a	beautiful config	2024-02-27 12:42:33 +01:00
juarez	49be101165	Rename teiler to exporter (bugfix)	2024-02-27 12:42:33 +01:00
juarez	6626f860a2	Rename teiler to exporter	2024-02-27 12:42:33 +01:00
juarez	eb17d8c159	Configure login extern URLs	2024-02-27 12:42:33 +01:00
juarez	6340acdbe8	Bugfix: services in teiler-ui-compose.yml	2024-02-27 12:42:32 +01:00
juarez	c916a357dc	Change images of dktk-teiler and dktk-keycloak	2024-02-27 12:42:32 +01:00
juarez	20e2b2a0ed	Add nngm and exliquid modules	2024-02-27 12:42:32 +01:00
juarez	2e6edb6179	Add Teiler UI and Teiler module	2024-02-27 12:42:32 +01:00
Tobias Kussel	c58096aa27	Merge pull request #155 from samply/fix/dnpm-no-proxy ... Add DNPM_NO_PROXY configuration option	2024-02-23 11:37:47 +01:00
Tobias Kussel	3f6e3a2bb4	mount and process trusted certs in dnpm-beam-connect	2024-02-22 15:41:11 +00:00
Tobias Kussel	9937002d06	Add DNPM_NO_PROXY configuration option	2024-02-21 15:04:00 +00:00
Tobias Kussel	aac31945a3	Add dnpm echo to dnpm-compose	2024-02-19 08:50:15 +00:00
Martin Lablans	44ac09b9c1	Bump postgres version to 15.6	2024-02-09 16:58:02 +01:00
Martin Lablans	ea51fc5910	Hotfix Pierre: Use version 1.0.0 for MTBA	2024-01-09 11:32:01 +01:00
Tobias Kussel	a80a980cea	Merge pull request #140 from samply/feature/dnpm-node ... Feature/dnpm node	2023-12-18 10:53:39 +01:00
Tobias Kussel	f66f2755d8	Change landing page path override to /landing	2023-12-15 13:32:00 +00:00
Tobias Kussel	c02da838c7	Cleanup dnpm connect module	2023-12-15 09:41:11 +00:00
Tobias Kussel	459fa7f78e	Add DNPM Node feature to minimal	2023-12-15 09:24:06 +00:00
Pierre Delpy	9bf1b42003	set mtba image to latest	2023-11-30 14:58:54 +01:00
juarez	2ba9645ab4	Bugfix: MTBA 1.0.0	2023-11-30 12:29:58 +01:00
Tobias Kussel	2252504d78	add bwhc node module	2023-11-03 07:33:16 +00:00
p.delpy@dkfz-heidelberg.de	0555786435	fix bash logic	2023-10-24 07:42:27 +02:00
p.delpy@dkfz-heidelberg.de	262b9bd62e	add adt2fhir-rest service	2023-10-24 07:30:17 +02:00
Torben Brenner	850a8eb973	chore: update postgres from 15.1 to 15.4	2023-09-18 15:06:00 +02:00
Tobias Kussel	169ce2436f	fix dnpm connect env, from bool to string	2023-08-28 17:21:52 +00:00
Tobias Kussel	bba8a03f9f	Use beam-connect:develop for DNPM	2023-08-24 12:22:43 +00:00
Patrick Skowronek	fa973e2cfa	fix: path in mtba setup	2023-08-16 09:37:30 +02:00
Patrick Skowronek	bbda5e917f	Cleanup	2023-08-16 09:35:36 +02:00
Martin Lablans	54d83736c3	Move BBMRI-ERIC, GBN to modules	2023-08-07 15:19:41 +02:00
Torben Brenner	0a12720e4c	fix: ensure id-management redirects with ssl	2023-07-25 13:27:21 +02:00
Tobias Kussel	6d94ebd4eb	Add path stripper	2023-06-30 06:02:32 +00:00
Tobias Kussel	f0d423fcf7	Adapt to new beam app syntax	2023-06-28 11:48:47 +02:00
Tobias Kussel	ff4fb06ad1	Address review comments	2023-05-19 11:53:03 +00:00
Tobias Kussel	a18b63e190	Use cached beam-connect image for dnpm	2023-05-17 10:04:35 +00:00
Tobias Kussel	f4134bcfca	Remove DNPM-BwHC experiment	2023-05-17 09:26:55 +00:00
Tobias Kussel	4e7f023b8a	Clean up bwhc startup	2023-05-16 10:56:28 +00:00
Tobias Kussel	187945b27e	Merge remote-tracking branch 'origin/main' into feature/dnpm-connect	2023-05-16 09:25:08 +00:00
Tobias Kussel	c9806ad874	Adapt DNPM configuration	2023-05-15 13:43:01 +02:00
Tobias Kussel	498092d36a	Replace deprecated openssl command	2023-05-10 10:59:13 +00:00
Tobias Kussel	3e1659a38d	Modularize DNPM components	2023-05-10 10:54:05 +00:00
Martin Lablans	33b50372c6	Pull docker images from DKFZ mirror	2023-03-09 11:16:34 +01:00
Torben Brenner	5a7dd1d0ae	fix: Use Mapped Site Id in Patientlist	2023-02-09 10:07:05 +01:00
Torben Brenner	64095ac8dd	feat: Added Upload ApiKey to Patientlist	2023-02-09 09:15:29 +01:00
Torben Brenner	d728ccd886	refactor: Fixated Postgres Version to 15.1 ... All Minor Updates will cause a crashing postgres on start	2023-02-08 15:02:35 +01:00
Torben Brenner	c88919c926	feature: Ensured the mapping to legacy ids works	2023-02-08 14:42:52 +01:00
Torben Brenner	2445a59785	refacotr: Restructured passing Patientlist Seeds	2023-02-07 16:26:07 +01:00
Torben Brenner	17d48a3636	refactor: Expect User to select a Backup Directory	2023-02-07 16:23:49 +01:00
Torben Brenner	1befa65f35	refactor: Changed Salt for patientlist db password	2023-02-07 16:23:18 +01:00
Torben Brenner	0d998ab871	refactor: Move persistent data to named volumes	2023-02-07 16:23:18 +01:00
Torben Brenner	1c3fa4fa3f	refactor: Changed Paths for persistent Data	2023-02-07 16:22:28 +01:00
Martin Lablans	4efe356005	Made it even easier for sites	2023-01-19 10:15:12 +00:00
Martin Lablans	af7960e036	Improve documentation	2023-01-19 10:05:03 +00:00
Torben Brenner	4d49351ad2	fix: Included Legacy ID-Mapping (Please Complete)	2023-01-12 08:26:49 +01:00
Torben Brenner	4f0526ddf4	docs: Added Documentation for the IDM Module	2023-01-12 08:26:49 +01:00
Torben Brenner	2a46bd00fd	refactor: Changed Trigger of the IDM Module	2023-01-12 08:26:49 +01:00
Torben Brenner	1ffc9b9cd5	feature: Added automated Backups for PostgreSQL	2023-01-12 08:26:49 +01:00
Torben Brenner	6d24dbce7f	Added Configuration for Local ID-Management	2023-01-12 08:26:49 +01:00