Fixes after fork

BiobankLab · Feb 20, 2024 · 1a95cd0 · 1a95cd0
1 parent 5e2d2d0
commit 1a95cd0
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Showing 21 changed files with 139 additions and 138 deletions.
diff --git a/.github/dependabot.yaml b/.github/dependabot.yaml
diff --git a/.github/integration/postgres.yml b/.github/integration/postgres.yml
@@ -52,7 +52,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-postgres
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-postgres
     ports:
       - "35432:5432"
     restart: always
@@ -70,7 +70,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-postgres
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-postgres
     ports:
       - "15432:5432"
     restart: always
@@ -94,7 +94,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-postgres
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-postgres
     ports:
       - "25432:5432"
     restart: always

diff --git a/.github/integration/rabbitmq-federation.yml b/.github/integration/rabbitmq-federation.yml
@@ -79,7 +79,7 @@ services:
       - BROKER_CLIENTKEY=/certs/client.key
       - BROKER_CACERT=/certs/ca.crt
       - LOG_LEVEL=debug
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     restart: always
     volumes:
       - certs:/certs
@@ -111,7 +111,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
     ports:
       - "15672:15671"
     restart: always

diff --git a/.github/integration/sda-posix-integration.yml b/.github/integration/sda-posix-integration.yml
@@ -79,7 +79,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-postgres
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-postgres
     ports:
       - "15432:5432"
     restart: always
@@ -110,7 +110,7 @@ services:
       interval: 5s
       timeout: 20s
       retries: 3
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
     ports:
       - "25671:15671"
     restart: always
@@ -121,7 +121,7 @@ services:
   inbox:
     build:
       context: ../../sda-sftp-inbox
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-sftp-inbox
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-sftp-inbox
     container_name: inbox
     depends_on:
       certfixer:

diff --git a/.github/integration/sda-s3-integration.yml b/.github/integration/sda-s3-integration.yml
@@ -27,7 +27,7 @@ services:
       interval: 10s
       timeout: 2s
       retries: 6
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-postgres
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-postgres
     ports:
       - "15432:5432"
     restart: always
@@ -49,7 +49,7 @@ services:
       interval: 10s
       timeout: 5s
       retries: 6
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}-rabbitmq
     ports:
       - "15672:15672"
     restart: always
@@ -81,7 +81,7 @@ services:
         GOLANG_VERSION: ${GOLANG_VERSION:-1.20}
       context: ../../sda
       target: debug
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-s3inbox ]
     container_name: s3inbox
     depends_on:
@@ -110,7 +110,7 @@ services:
       - "18001:8001"
 
   ingest:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-ingest ]
     container_name: ingest
     depends_on:
@@ -135,7 +135,7 @@ services:
       - shared:/shared
 
   verify:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-verify ]
     container_name: verify
     depends_on:
@@ -160,7 +160,7 @@ services:
       - shared:/shared
 
   finalize:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-finalize ]
     container_name: finalize
     depends_on:
@@ -185,7 +185,7 @@ services:
       - shared:/shared
 
   mapper:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-mapper ]
     container_name: mapper
     depends_on:
@@ -209,7 +209,7 @@ services:
       - shared:/shared
 
   sync:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-sync ]
     container_name: sync
     depends_on:
@@ -233,7 +233,7 @@ services:
       - shared:/shared
 
   sync-api:
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     command: [ sda-syncapi ]
     container_name: sync-api
     depends_on:
@@ -295,7 +295,7 @@ services:
       - BROKER_ROUTINGERROR=error
       - DB_PASSWORD=download
       - DB_USER=download
-    image: ghcr.io/neicnordic/sensitive-data-archive:PR${PR_NUMBER}
+    image: ghcr.io/BiobankLab/sensitive-data-archive:PR${PR_NUMBER}
     ports:
       - "8090:8080"
     restart: always

diff --git a/.github/workflows/functionality.yml b/.github/workflows/functionality.yml
@@ -105,7 +105,7 @@ jobs:
       - name: Build image
         run: |
           cd sda-sftp-inbox
-          docker build -t neicnordic/sda-inbox-sftp:latest .
+          docker build -t BiobankLab/sda-inbox-sftp:latest .
 
       - name: Start Services
         run: |

diff --git a/.github/workflows/publish_container.yml b/.github/workflows/publish_container.yml
@@ -121,7 +121,7 @@ jobs:
         with:
           token: ${{ secrets.GHCR_TOKEN }}
           commit-message: Bump chart version
-          author: neicnordic <neicnordic@users.noreply.github.com>
+          author: BiobankLab <BiobankLab@users.noreply.github.com>
           base: main
           branch: bump
           delete-branch: true
@@ -130,4 +130,4 @@ jobs:
             Bump the appVersion to: ${{ needs.tag_release.outputs.tag }}
           labels: |
             automated pr
-          team-reviewers: neicnordic/sensitive-data-development-collaboration
+          team-reviewers: BiobankLab/sensitive-data-development-collaboration
diff --git a/.github/workflows/update-docs.yml b/.github/workflows/update-docs.yml
@@ -2,7 +2,7 @@ name: Update documentation
 
 # NOTE: This action requires that a github secret exists in this repository
 #       named NEIC_SDA_ACCESS, containing a github token with the
-#       "Actions: Read and Write" permission on the neicnordic/neic-sda
+#       "Actions: Read and Write" permission on the BiobankLab/neic-sda
 #       repository.
 
 on:
@@ -20,7 +20,7 @@ jobs:
           result=$(curl -X POST \
           -H "Authorization: Bearer ${{secrets.NEIC_SDA_ACCESS}}" \
           -H "Accept: application/vnd.github.v3+json" \
-          https://api.github.com/repos/neicnordic/neic-sda/actions/workflows/aggregate.yml/dispatches \
+          https://api.github.com/repos/BiobankLab/neic-sda/actions/workflows/aggregate.yml/dispatches \
           -d "{\"ref\": \"master\", \"inputs\":{\"repository\": \"$GITHUB_REPOSITORY\"}}")
           if [ -n "$result" ]; then
               echo "$result"

diff --git a/charts/sda-db/Chart.yaml b/charts/sda-db/Chart.yaml
@@ -1,7 +1,7 @@
 apiVersion: v2
 name: sda-db
 version: 0.8.11
-appVersion: v0.2.88
+appVersion: v0.1.00
 kubeVersion: '>= 1.26.0'
 description: Database component for Sensitive Data Archive (SDA) installation
 home: https://neic-sda.readthedocs.io

diff --git a/charts/sda-db/values.yaml b/charts/sda-db/values.yaml
@@ -25,7 +25,7 @@ externalPkiService:
 extraSecurityContext: {}
 
 image:
-  repository: ghcr.io/neicnordic/sensitive-data-archive
+  repository: ghcr.io/BiobankLab/sensitive-data-archive
   tag:
   pullPolicy: IfNotPresent
 

diff --git a/charts/sda-mq/Chart.yaml b/charts/sda-mq/Chart.yaml
@@ -1,7 +1,7 @@
 apiVersion: v2
 name: sda-mq
 version: 0.7.12
-appVersion: v0.2.88
+appVersion: v0.1.00
 kubeVersion: '>= 1.26.0'
 description: RabbitMQ component for Sensitive Data Archive (SDA) installation
 home: https://neic-sda.readthedocs.io

diff --git a/charts/sda-mq/values.yaml b/charts/sda-mq/values.yaml
@@ -46,7 +46,7 @@ externalPkiService:
 extraSecurityContext: {}
 
 image:
-  repository: ghcr.io/neicnordic/sensitive-data-archive
+  repository: ghcr.io/BiobankLab/sensitive-data-archive
   tag:
   pullPolicy: Always
 

diff --git a/charts/sda-orch/values.yaml b/charts/sda-orch/values.yaml
@@ -1,6 +1,6 @@
 
 image:
-  repository: ghcr.io/neicnordic/sda-orch
+  repository: ghcr.io/BiobankLab/sda-orch
   tag: v0.10.2
   pullPolicy: Always
 logLevel: "info"

diff --git a/charts/sda-svc/Chart.yaml b/charts/sda-svc/Chart.yaml
@@ -1,7 +1,7 @@
 apiVersion: v2
 name: sda-svc
 version: 0.23.7
-appVersion: v0.2.88
+appVersion: v0.1.00
 kubeVersion: '>= 1.26.0'
 description: Components for Sensitive Data Archive (SDA) installation
 home: https://neic-sda.readthedocs.io

diff --git a/charts/sda-svc/values.yaml b/charts/sda-svc/values.yaml
@@ -1,7 +1,7 @@
 # Default values for SDA services.
 # Declare variables to be passed into your templates.
 image:
-  repository: "ghcr.io/neicnordic/sensitive-data-archive"
+  repository: "ghcr.io/BiobankLab/sensitive-data-archive"
   tag:
   pullPolicy: "Always"
 
@@ -354,7 +354,7 @@ auth:
 
 doa:
   name: doa
-  repository: ghcr.io/neicnordic/sda-doa
+  repository: ghcr.io/BiobankLab/sda-doa
   imageTag: v1.6.62
   imagePullPolicy: IfNotPresent
   replicaCount: 2
@@ -532,7 +532,7 @@ syncapi:
 
 releasetest:
   run: false
-  repository: neicnordic/sda-helm-tests-support
+  repository: BiobankLab/sda-helm-tests-support
   imageTag: latest
   imagePullPolicy: IfNotPresent
   tls:
@@ -542,7 +542,7 @@ releasetest:
 
 verify:
   replicaCount: 1
-  repository: ghcr.io/neicnordic/sda-pipeline
+  repository: ghcr.io/BiobankLab/sda-pipeline
   imageTag: v0.4.27
   imagePullPolicy: IfNotPresent
   resources: