diff --git a/dbrepo-analyse-service/Pipfile.lock b/dbrepo-analyse-service/Pipfile.lock
index ccad4d87dec7f7757ef51bfcd392885517ae0881..94704d5c24469e8669f7037f90a622361f87a2cb 100644
--- a/dbrepo-analyse-service/Pipfile.lock
+++ b/dbrepo-analyse-service/Pipfile.lock
@@ -180,20 +180,20 @@
},
"boto3": {
"hashes": [
- "sha256:12166353519aca0cc8d9dcfbbb0d38f8915955a5912b8cb241b2b2314f0dbc14",
- "sha256:ae6e7048beeaa4478368e554a4b290e3928beb0ae8d8767d108d72381a81af30"
+ "sha256:4c661389e68437a3fbc1f63decea24b88f7175e022c68622848d47fdf6e0144f",
+ "sha256:e2f4a1edb7e6dbd541c2962117e1c6fea8d5a42788c441a958700a43a3ca7c47"
],
"index": "pypi",
"markers": "python_version >= '3.8'",
- "version": "==1.37.5"
+ "version": "==1.37.6"
},
"botocore": {
"hashes": [
- "sha256:e5cfbb8026d5b4fadd9b3a18b61d238a41a8b8f620ab75873dc1467d456150d6",
- "sha256:f8f526d33ae74d242c577e0440b57b9ec7d53edd41db211155ec8087fe7a5a21"
+ "sha256:2cb121a403cbec047d76e2401a402a6b2efd3309169037fbac588e8f7125aec4",
+ "sha256:cd282fe9c8adbb55a08c7290982a98ac6cc4507fa1c493f48bc43fd6c8376a57"
],
"markers": "python_version >= '3.8'",
- "version": "==1.37.5"
+ "version": "==1.37.6"
},
"certifi": {
"hashes": [
@@ -425,7 +425,7 @@
},
"dbrepo": {
"hashes": [
- "sha256:e7d2c9e77d038c4f058e026e2bf1ae5fc3a90fd6a574dc7861e32985e745d7bb"
+ "sha256:4f5ee48e9a68a44c2d1184923b90729d724553862742738d8f942273a586eb3d"
],
"path": "./lib/dbrepo-1.7.1.tar.gz"
},
@@ -1583,11 +1583,11 @@
},
"s3transfer": {
"hashes": [
- "sha256:ca855bdeb885174b5ffa95b9913622459d4ad8e331fc98eb01e6d5eb6a30655d",
- "sha256:edae4977e3a122445660c7c114bba949f9d191bae3b34a096f18a1c8c354527a"
+ "sha256:559f161658e1cf0a911f45940552c696735f5c74e64362e515f333ebed87d679",
+ "sha256:ac265fa68318763a03bf2dc4f39d5cbd6a9e178d81cc9483ad27da33637e320d"
],
"markers": "python_version >= '3.8'",
- "version": "==0.11.3"
+ "version": "==0.11.4"
},
"setuptools": {
"hashes": [
diff --git a/dbrepo-analyse-service/lib/dbrepo-1.7.1-py3-none-any.whl b/dbrepo-analyse-service/lib/dbrepo-1.7.1-py3-none-any.whl
index 708d1faa89d04752658861d56c0501eb3b12f591..8e77c6e1f6a01b3d9739280f29539985c359d2c8 100644
Binary files a/dbrepo-analyse-service/lib/dbrepo-1.7.1-py3-none-any.whl and b/dbrepo-analyse-service/lib/dbrepo-1.7.1-py3-none-any.whl differ
diff --git a/dbrepo-analyse-service/lib/dbrepo-1.7.1.tar.gz b/dbrepo-analyse-service/lib/dbrepo-1.7.1.tar.gz
index e03ab1cb798ecc5deb85b095d519c6cf5e493823..ede846d6168615c3e3bac49872362163b0a9f005 100644
Binary files a/dbrepo-analyse-service/lib/dbrepo-1.7.1.tar.gz and b/dbrepo-analyse-service/lib/dbrepo-1.7.1.tar.gz differ
diff --git a/dbrepo-auth-service/listeners/target/create-event-listener.jar b/dbrepo-auth-service/listeners/target/create-event-listener.jar
index 71cf130b3c6057a04bc4525370d1e194b17b43fb..b117c50b6646de91273c95dc5749cd54868012be 100644
Binary files a/dbrepo-auth-service/listeners/target/create-event-listener.jar and b/dbrepo-auth-service/listeners/target/create-event-listener.jar differ
diff --git a/dbrepo-dashboard-service/provisioning/dashboards/provider.yaml b/dbrepo-dashboard-service/provisioning/dashboards/provider.yaml
deleted file mode 100644
index f54289797de349a240ede871f4d4402fa89214b3..0000000000000000000000000000000000000000
--- a/dbrepo-dashboard-service/provisioning/dashboards/provider.yaml
+++ /dev/null
@@ -1,24 +0,0 @@
-apiVersion: 1
-
-providers:
- # <string> an unique provider name. Required
- - name: 'dbrepo'
- # <int> Org id. Default to 1
- orgId: 1
- # <string> name of the dashboard folder.
- folder: '/app/dashboards'
- # <string> folder UID. will be automatically generated if not specified
- folderUid: ''
- # <string> provider type. Default to 'file'
- type: file
- # <bool> disable dashboard deletion
- disableDeletion: false
- # <int> how often Grafana will scan for changed dashboards
- updateIntervalSeconds: 10
- # <bool> allow updating provisioned dashboards from the UI
- allowUiUpdates: false
- options:
- # <string, required> path to dashboard files on disk. Required when using the 'file' type
- path: /app/dashboards
- # <bool> use folder names from filesystem to create folders in Grafana
- foldersFromFilesStructure: true
\ No newline at end of file
diff --git a/dbrepo-dashboard-service/provisioning/datasources/prometheus.yaml b/dbrepo-dashboard-service/provisioning/datasources/prometheus.yaml
deleted file mode 100644
index a46c561957abfd2093e275f213f29f0db7d3fe5c..0000000000000000000000000000000000000000
--- a/dbrepo-dashboard-service/provisioning/datasources/prometheus.yaml
+++ /dev/null
@@ -1,7 +0,0 @@
-apiVersion: 1
-
-datasources:
- - name: dbrepo-metric-db
- type: prometheus
- uid: P18F45E9DC7E75912
- url: http://metric-db:9090
diff --git a/dbrepo-data-service/services/src/main/java/at/tuwien/config/GatewayConfig.java b/dbrepo-data-service/services/src/main/java/at/tuwien/config/GatewayConfig.java
index 26f181c39d67fb81e37557f59bbd3522cc5d2278..17bc60b90aaa3a84988ebfd95a294f6aa2dfb5fb 100644
--- a/dbrepo-data-service/services/src/main/java/at/tuwien/config/GatewayConfig.java
+++ b/dbrepo-data-service/services/src/main/java/at/tuwien/config/GatewayConfig.java
@@ -5,6 +5,7 @@ import at.tuwien.service.CredentialService;
import lombok.Getter;
import lombok.extern.log4j.Log4j2;
import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.beans.factory.annotation.Qualifier;
import org.springframework.beans.factory.annotation.Value;
import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Configuration;
diff --git a/dbrepo-data-service/services/src/main/java/at/tuwien/service/CredentialService.java b/dbrepo-data-service/services/src/main/java/at/tuwien/service/CredentialService.java
deleted file mode 100644
index b1c28cf1701772eb16f3c79a8f155faf6e8261a9..0000000000000000000000000000000000000000
--- a/dbrepo-data-service/services/src/main/java/at/tuwien/service/CredentialService.java
+++ /dev/null
@@ -1,16 +0,0 @@
-package at.tuwien.service;
-
-import at.tuwien.api.keycloak.TokenDto;
-
-public interface CredentialService {
-
- /**
- * Gets credentials for a user with given id in a database with given id either from the cache (if not expired) or
- * retrieves them from the Metadata Service.
- *
- * @param username The username.
- * @param password The user password.
- * @return The credentials.
- */
- TokenDto getAccessToken(String username, String password);
-}
diff --git a/dbrepo-data-service/services/src/main/java/at/tuwien/service/impl/CredentialServiceImpl.java b/dbrepo-data-service/services/src/main/java/at/tuwien/service/impl/CredentialServiceImpl.java
deleted file mode 100644
index 7cf7d1eff4394ae174b0e724fa8e34455b363578..0000000000000000000000000000000000000000
--- a/dbrepo-data-service/services/src/main/java/at/tuwien/service/impl/CredentialServiceImpl.java
+++ /dev/null
@@ -1,44 +0,0 @@
-package at.tuwien.service.impl;
-
-import at.tuwien.api.keycloak.TokenDto;
-import at.tuwien.gateway.KeycloakGateway;
-import at.tuwien.service.CredentialService;
-import com.github.benmanes.caffeine.cache.Cache;
-import lombok.extern.log4j.Log4j2;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.stereotype.Service;
-
-@Log4j2
-@Service
-public class CredentialServiceImpl implements CredentialService {
-
- private final KeycloakGateway keycloakGateway;
- private final Cache<String, TokenDto> tokenCache;
-
- @Autowired
- public CredentialServiceImpl(KeycloakGateway keycloakGateway, Cache<String, TokenDto> tokenCache) {
- this.tokenCache = tokenCache;
- this.keycloakGateway = keycloakGateway;
- }
-
- @Override
- public TokenDto getAccessToken(String username, String password) {
- final TokenDto cacheAccessToken = tokenCache.getIfPresent(username);
- if (cacheAccessToken != null) {
- log.trace("found access token for user with username {} in cache", username);
- return cacheAccessToken;
- }
- log.debug("access token for user with username {} not it cache (anymore): request new", username);
- final TokenDto token = keycloakGateway.obtainUserToken(username, password);
- tokenCache.put(username, token);
- return token;
- }
-
- /**
- * Method for test cases to remove all caches.
- */
- public void invalidateAll() {
- tokenCache.invalidateAll();
- }
-
-}
diff --git a/dbrepo-search-service/Pipfile.lock b/dbrepo-search-service/Pipfile.lock
index e59d39f12ef70bc54c2afc627cdb88ef58d8d722..ac2d0e3f70431e171ffda6524d193727056840b4 100644
--- a/dbrepo-search-service/Pipfile.lock
+++ b/dbrepo-search-service/Pipfile.lock
@@ -373,7 +373,7 @@
},
"dbrepo": {
"hashes": [
- "sha256:e7d2c9e77d038c4f058e026e2bf1ae5fc3a90fd6a574dc7861e32985e745d7bb"
+ "sha256:4f5ee48e9a68a44c2d1184923b90729d724553862742738d8f942273a586eb3d"
],
"path": "./lib/dbrepo-1.7.1.tar.gz"
},
diff --git a/dbrepo-search-service/init/Pipfile.lock b/dbrepo-search-service/init/Pipfile.lock
index 9cb2f00bfbdb76426457e8f003d1e9b008e8aee3..39a52462e0daa22c8052517b0617cb350e9a9408 100644
--- a/dbrepo-search-service/init/Pipfile.lock
+++ b/dbrepo-search-service/init/Pipfile.lock
@@ -259,7 +259,7 @@
},
"dbrepo": {
"hashes": [
- "sha256:e7d2c9e77d038c4f058e026e2bf1ae5fc3a90fd6a574dc7861e32985e745d7bb"
+ "sha256:4f5ee48e9a68a44c2d1184923b90729d724553862742738d8f942273a586eb3d"
],
"path": "./lib/dbrepo-1.7.1.tar.gz"
},
diff --git a/dbrepo-search-service/init/lib/dbrepo-1.7.1-py3-none-any.whl b/dbrepo-search-service/init/lib/dbrepo-1.7.1-py3-none-any.whl
index 708d1faa89d04752658861d56c0501eb3b12f591..8e77c6e1f6a01b3d9739280f29539985c359d2c8 100644
Binary files a/dbrepo-search-service/init/lib/dbrepo-1.7.1-py3-none-any.whl and b/dbrepo-search-service/init/lib/dbrepo-1.7.1-py3-none-any.whl differ
diff --git a/dbrepo-search-service/init/lib/dbrepo-1.7.1.tar.gz b/dbrepo-search-service/init/lib/dbrepo-1.7.1.tar.gz
index e03ab1cb798ecc5deb85b095d519c6cf5e493823..ede846d6168615c3e3bac49872362163b0a9f005 100644
Binary files a/dbrepo-search-service/init/lib/dbrepo-1.7.1.tar.gz and b/dbrepo-search-service/init/lib/dbrepo-1.7.1.tar.gz differ
diff --git a/dbrepo-search-service/lib/dbrepo-1.7.1-py3-none-any.whl b/dbrepo-search-service/lib/dbrepo-1.7.1-py3-none-any.whl
index 708d1faa89d04752658861d56c0501eb3b12f591..8e77c6e1f6a01b3d9739280f29539985c359d2c8 100644
Binary files a/dbrepo-search-service/lib/dbrepo-1.7.1-py3-none-any.whl and b/dbrepo-search-service/lib/dbrepo-1.7.1-py3-none-any.whl differ
diff --git a/dbrepo-search-service/lib/dbrepo-1.7.1.tar.gz b/dbrepo-search-service/lib/dbrepo-1.7.1.tar.gz
index e03ab1cb798ecc5deb85b095d519c6cf5e493823..ede846d6168615c3e3bac49872362163b0a9f005 100644
Binary files a/dbrepo-search-service/lib/dbrepo-1.7.1.tar.gz and b/dbrepo-search-service/lib/dbrepo-1.7.1.tar.gz differ
diff --git a/helm/dbrepo/files/create-event-listener.jar b/helm/dbrepo/files/create-event-listener.jar
index 71cf130b3c6057a04bc4525370d1e194b17b43fb..b117c50b6646de91273c95dc5749cd54868012be 100644
Binary files a/helm/dbrepo/files/create-event-listener.jar and b/helm/dbrepo/files/create-event-listener.jar differ
diff --git a/helm/dbrepo/templates/metadata-setup-configmap.yaml b/helm/dbrepo/templates/metadata-setup-configmap.yaml
new file mode 100644
index 0000000000000000000000000000000000000000..608f1d13e162665464faeaf3eaa789834f6a8429
--- /dev/null
+++ b/helm/dbrepo/templates/metadata-setup-configmap.yaml
@@ -0,0 +1,19 @@
+{{- if .Values.metadatadb.enabled }}
+---
+apiVersion: v1
+kind: ConfigMap
+metadata:
+ name: metadata-db-setup
+ namespace: {{ include "common.names.namespace" . | quote }}
+data:
+ {{- with .Values.metadatadb.extraInitDbScripts }}
+ {{ toYaml . | nindent 2 }}
+ {{- end }}
+ {{ (.Files.Glob "files/01-setup-schema.sql").AsConfig | nindent 2 }}
+ 02-setup-data.sql: |
+ BEGIN;
+ INSERT INTO `mdb_containers` (name, internal_name, image_id, host, port, privileged_username, privileged_password)
+ VALUES ('mariadb-galera:11.3.2-debian-12-r9', 'mariadb-galera:11.3.2-debian-12-r9', 1, 'data-db', 3306, '{{ .Values.datadb.rootUser.user }}', '{{ .Values.datadb.rootUser.password }}');
+ COMMIT;
+ {{ (.Files.Glob "files/my.cnf").AsConfig | nindent 2 }}
+{{- end }}
diff --git a/helm/seaweedfs/charts/mariadb-20.2.4.tgz b/helm/seaweedfs/charts/mariadb-20.2.4.tgz
new file mode 100644
index 0000000000000000000000000000000000000000..eb0f7bcfab6286495ed5338abdb8221b1f89805c
Binary files /dev/null and b/helm/seaweedfs/charts/mariadb-20.2.4.tgz differ
diff --git a/helm/seaweedfs/charts/postgresql-16.4.9.tgz b/helm/seaweedfs/charts/postgresql-16.4.9.tgz
new file mode 100644
index 0000000000000000000000000000000000000000..4bb0578224f0d8817e757a759547b171798bd407
Binary files /dev/null and b/helm/seaweedfs/charts/postgresql-16.4.9.tgz differ
diff --git a/lib/python/coverage.xml b/lib/python/coverage.xml
new file mode 100644
index 0000000000000000000000000000000000000000..ac21b0bc1ed6b9f659ba578333c89e481c34ca8f
--- /dev/null
+++ b/lib/python/coverage.xml
@@ -0,0 +1,1866 @@
+<?xml version="1.0" ?>
+<coverage version="7.6.10" timestamp="1740478405603" lines-valid="1820" lines-covered="1743" line-rate="0.9577" branches-covered="0" branches-valid="0" branch-rate="0" complexity="0">
+ <!-- Generated by coverage.py: https://coverage.readthedocs.io/en/7.6.10 -->
+ <!-- Based on https://raw.githubusercontent.com/cobertura/web/master/htdocs/xml/coverage-04.dtd -->
+ <sources>
+ <source>/home/mweise/Projects/fda-services/lib/python</source>
+ </sources>
+ <packages>
+ <package name="dbrepo" line-rate="0.9134" branch-rate="0" complexity="0">
+ <classes>
+ <class name="RestClient.py" filename="dbrepo/RestClient.py" complexity="0" line-rate="0.9248" branch-rate="0">
+ <methods/>
+ <lines>
+ <line number="1" hits="1"/>
+ <line number="2" hits="1"/>
+ <line number="3" hits="1"/>
+ <line number="5" hits="1"/>
+ <line number="6" hits="1"/>
+ <line number="7" hits="1"/>
+ <line number="9" hits="1"/>
+ <line number="10" hits="1"/>
+ <line number="11" hits="1"/>
+ <line number="15" hits="1"/>
+ <line number="19" hits="1"/>
+ <line number="31" hits="1"/>
+ <line number="32" hits="1"/>
+ <line number="33" hits="1"/>
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+ <line number="44" hits="1"/>
+ <line number="45" hits="1"/>
+ <line number="47" hits="1"/>
+ <line number="48" hits="1"/>
+ <line number="51" hits="1"/>
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+ <line number="54" hits="1"/>
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diff --git a/make/dev.mk b/make/dev.mk
index 1c7d62d7eebc914f5d5b0d1590e00a310c1e0563..4d2e26f5f99a56d3373450e8559c33a93f8ed77f 100644
--- a/make/dev.mk
+++ b/make/dev.mk
@@ -30,7 +30,6 @@ package-config: ## Package the config files
cp ./dbrepo-gateway-service/dbrepo.conf ./.docker/config
cp ./dbrepo-metric-db/prometheus.yml ./.docker/config
cp ./dbrepo-storage-service/s3_config.json ./.docker/config
- cp ./dbrepo-upload-service/pre-create.sh ./.docker/config
cp ./dbrepo-auth-service/listeners/target/create-event-listener.jar ./.docker/config
cd ./.docker && tar czf ./dist.tar.gz ./docker-compose.yml ./.env ./config