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sync-fork-8
Dec 4, 2025
Merged

Sync fork 8#15
kkochel merged 44 commits intomainfrom
sync-fork-8

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@kkochel kkochel commented Oct 9, 2025

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dependabot bot and others added 30 commits September 15, 2025 19:04
Bumps the all-modules group in /sda-download with 2 updates: [google.golang.org/grpc](https://github.com/grpc/grpc-go) and google.golang.org/protobuf.


Updates `google.golang.org/grpc` from 1.75.0 to 1.75.1
- [Release notes](https://github.com/grpc/grpc-go/releases)
- [Commits](grpc/grpc-go@v1.75.0...v1.75.1)

Updates `google.golang.org/protobuf` from 1.36.8 to 1.36.9

---
updated-dependencies:
- dependency-name: google.golang.org/grpc
  dependency-version: 1.75.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: google.golang.org/protobuf
  dependency-version: 1.36.9
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda-sftp-inbox with 2 updates: [org.apache.maven.plugins:maven-surefire-plugin](https://github.com/apache/maven-surefire) and [org.apache.maven.plugins:maven-failsafe-plugin](https://github.com/apache/maven-surefire).


Updates `org.apache.maven.plugins:maven-surefire-plugin` from 3.5.3 to 3.5.4
- [Release notes](https://github.com/apache/maven-surefire/releases)
- [Commits](apache/maven-surefire@surefire-3.5.3...surefire-3.5.4)

Updates `org.apache.maven.plugins:maven-failsafe-plugin` from 3.5.3 to 3.5.4
- [Release notes](https://github.com/apache/maven-surefire/releases)
- [Commits](apache/maven-surefire@surefire-3.5.3...surefire-3.5.4)

---
updated-dependencies:
- dependency-name: org.apache.maven.plugins:maven-surefire-plugin
  dependency-version: 3.5.4
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: org.apache.maven.plugins:maven-failsafe-plugin
  dependency-version: 3.5.4
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda-doa with 1 update: [com.google.code.gson:gson](https://github.com/google/gson).


Updates `com.google.code.gson:gson` from 2.13.1 to 2.13.2
- [Release notes](https://github.com/google/gson/releases)
- [Changelog](https://github.com/google/gson/blob/main/CHANGELOG.md)
- [Commits](google/gson@gson-parent-2.13.1...gson-parent-2.13.2)

---
updated-dependencies:
- dependency-name: com.google.code.gson:gson
  dependency-version: 2.13.2
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda with 7 updates:

| Package | From | To |
| --- | --- | --- |
| [github.com/aws/aws-sdk-go-v2/config](https://github.com/aws/aws-sdk-go-v2) | `1.31.7` | `1.31.8` |
| [github.com/aws/aws-sdk-go-v2/credentials](https://github.com/aws/aws-sdk-go-v2) | `1.18.11` | `1.18.12` |
| [github.com/aws/aws-sdk-go-v2/feature/s3/manager](https://github.com/aws/aws-sdk-go-v2) | `1.19.5` | `1.19.6` |
| [github.com/aws/aws-sdk-go-v2/service/s3](https://github.com/aws/aws-sdk-go-v2) | `1.88.0` | `1.88.1` |
| [github.com/casbin/casbin/v2](https://github.com/casbin/casbin) | `2.122.0` | `2.123.0` |
| [google.golang.org/grpc](https://github.com/grpc/grpc-go) | `1.75.0` | `1.75.1` |
| google.golang.org/protobuf | `1.36.8` | `1.36.9` |


Updates `github.com/aws/aws-sdk-go-v2/config` from 1.31.7 to 1.31.8
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@config/v1.31.7...config/v1.31.8)

Updates `github.com/aws/aws-sdk-go-v2/credentials` from 1.18.11 to 1.18.12
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@config/v1.18.11...config/v1.18.12)

Updates `github.com/aws/aws-sdk-go-v2/feature/s3/manager` from 1.19.5 to 1.19.6
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@service/pi/v1.19.5...service/m2/v1.19.6)

Updates `github.com/aws/aws-sdk-go-v2/service/s3` from 1.88.0 to 1.88.1
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@service/s3/v1.88.0...service/s3/v1.88.1)

Updates `github.com/casbin/casbin/v2` from 2.122.0 to 2.123.0
- [Release notes](https://github.com/casbin/casbin/releases)
- [Changelog](https://github.com/casbin/casbin/blob/master/.releaserc.json)
- [Commits](casbin/casbin@v2.122.0...v2.123.0)

Updates `google.golang.org/grpc` from 1.75.0 to 1.75.1
- [Release notes](https://github.com/grpc/grpc-go/releases)
- [Commits](grpc/grpc-go@v1.75.0...v1.75.1)

Updates `google.golang.org/protobuf` from 1.36.8 to 1.36.9

---
updated-dependencies:
- dependency-name: github.com/aws/aws-sdk-go-v2/config
  dependency-version: 1.31.8
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/aws/aws-sdk-go-v2/credentials
  dependency-version: 1.18.12
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/aws/aws-sdk-go-v2/feature/s3/manager
  dependency-version: 1.19.6
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/aws/aws-sdk-go-v2/service/s3
  dependency-version: 1.88.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/casbin/casbin/v2
  dependency-version: 2.123.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
- dependency-name: google.golang.org/grpc
  dependency-version: 1.75.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: google.golang.org/protobuf
  dependency-version: 1.36.9
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
…da-doa/all-modules-4fbbc84630

Bump com.google.code.gson:gson from 2.13.1 to 2.13.2 in /sda-doa in the all-modules group
…les/sda-download/all-modules-bb87acd00d

Bump the all-modules group in /sda-download with 2 updates
…da-sftp-inbox/all-modules-cf6b50966d

Bump the all-modules group in /sda-sftp-inbox with 2 updates
…les/sda/all-modules-6af3007e14

Bump the all-modules group in /sda with 7 updates
Bumps the all-modules group in /sda-download with 1 update: [github.com/gin-gonic/gin](https://github.com/gin-gonic/gin).


Updates `github.com/gin-gonic/gin` from 1.10.1 to 1.11.0
- [Release notes](https://github.com/gin-gonic/gin/releases)
- [Changelog](https://github.com/gin-gonic/gin/blob/master/CHANGELOG.md)
- [Commits](gin-gonic/gin@v1.10.1...v1.11.0)

---
updated-dependencies:
- dependency-name: github.com/gin-gonic/gin
  dependency-version: 1.11.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda-sftp-inbox with 3 updates: [org.springframework.boot:spring-boot-starter-parent](https://github.com/spring-projects/spring-boot), [com.google.guava:guava](https://github.com/google/guava) and [org.bouncycastle:bcprov-jdk18on](https://github.com/bcgit/bc-java).


Updates `org.springframework.boot:spring-boot-starter-parent` from 3.5.5 to 3.5.6
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](spring-projects/spring-boot@v3.5.5...v3.5.6)

Updates `com.google.guava:guava` from 33.4.8-jre to 33.5.0-jre
- [Release notes](https://github.com/google/guava/releases)
- [Commits](https://github.com/google/guava/commits)

Updates `org.bouncycastle:bcprov-jdk18on` from 1.81 to 1.82
- [Changelog](https://github.com/bcgit/bc-java/blob/main/docs/releasenotes.html)
- [Commits](https://github.com/bcgit/bc-java/commits)

---
updated-dependencies:
- dependency-name: org.springframework.boot:spring-boot-starter-parent
  dependency-version: 3.5.6
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: com.google.guava:guava
  dependency-version: 33.5.0-jre
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
- dependency-name: org.bouncycastle:bcprov-jdk18on
  dependency-version: '1.82'
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda with 5 updates:

| Package | From | To |
| --- | --- | --- |
| [github.com/aws/aws-sdk-go-v2/config](https://github.com/aws/aws-sdk-go-v2) | `1.31.8` | `1.31.9` |
| [github.com/aws/aws-sdk-go-v2/credentials](https://github.com/aws/aws-sdk-go-v2) | `1.18.12` | `1.18.13` |
| [github.com/aws/aws-sdk-go-v2/feature/s3/manager](https://github.com/aws/aws-sdk-go-v2) | `1.19.6` | `1.19.7` |
| [github.com/casbin/casbin/v2](https://github.com/casbin/casbin) | `2.123.0` | `2.127.0` |
| [github.com/gin-gonic/gin](https://github.com/gin-gonic/gin) | `1.10.1` | `1.11.0` |


Updates `github.com/aws/aws-sdk-go-v2/config` from 1.31.8 to 1.31.9
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@config/v1.31.8...config/v1.31.9)

Updates `github.com/aws/aws-sdk-go-v2/credentials` from 1.18.12 to 1.18.13
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/config/v1.18.13/CHANGELOG.md)
- [Commits](aws/aws-sdk-go-v2@config/v1.18.12...config/v1.18.13)

Updates `github.com/aws/aws-sdk-go-v2/feature/s3/manager` from 1.19.6 to 1.19.7
- [Release notes](https://github.com/aws/aws-sdk-go-v2/releases)
- [Changelog](https://github.com/aws/aws-sdk-go-v2/blob/main/changelog-template.json)
- [Commits](aws/aws-sdk-go-v2@service/m2/v1.19.6...service/m2/v1.19.7)

Updates `github.com/casbin/casbin/v2` from 2.123.0 to 2.127.0
- [Release notes](https://github.com/casbin/casbin/releases)
- [Changelog](https://github.com/casbin/casbin/blob/master/.releaserc.json)
- [Commits](casbin/casbin@v2.123.0...v2.127.0)

Updates `github.com/gin-gonic/gin` from 1.10.1 to 1.11.0
- [Release notes](https://github.com/gin-gonic/gin/releases)
- [Changelog](https://github.com/gin-gonic/gin/blob/master/CHANGELOG.md)
- [Commits](gin-gonic/gin@v1.10.1...v1.11.0)

---
updated-dependencies:
- dependency-name: github.com/aws/aws-sdk-go-v2/config
  dependency-version: 1.31.9
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/aws/aws-sdk-go-v2/credentials
  dependency-version: 1.18.13
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/aws/aws-sdk-go-v2/feature/s3/manager
  dependency-version: 1.19.7
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: github.com/casbin/casbin/v2
  dependency-version: 2.127.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
- dependency-name: github.com/gin-gonic/gin
  dependency-version: 1.11.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda-doa with 1 update: [org.springframework.boot:spring-boot-starter-parent](https://github.com/spring-projects/spring-boot).


Updates `org.springframework.boot:spring-boot-starter-parent` from 3.5.5 to 3.5.6
- [Release notes](https://github.com/spring-projects/spring-boot/releases)
- [Commits](spring-projects/spring-boot@v3.5.5...v3.5.6)

---
updated-dependencies:
- dependency-name: org.springframework.boot:spring-boot-starter-parent
  dependency-version: 3.5.6
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
…da-doa/all-modules-9ff97370fe

Bump org.springframework.boot:spring-boot-starter-parent from 3.5.5 to 3.5.6 in /sda-doa in the all-modules group
…les/sda-download/all-modules-ecd0466ef2

Bump github.com/gin-gonic/gin from 1.10.1 to 1.11.0 in /sda-download in the all-modules group
…da-sftp-inbox/all-modules-03ca2a5cd1

Bump the all-modules group in /sda-sftp-inbox with 3 updates
…les/sda/all-modules-abb16a60db

Bump the all-modules group in /sda with 5 updates
…d replace join with view to join on sda.checksum directly
… that the getFiles query has not been changed, and update s3 unit test to expect new query
…eChecksum, and encryptedFileChecksumType from the response of the /metadata/datasets/*dataset/files API to reduce amount of joins in query
This will prevent ENVs to be injected into the pods that can mess with the configuration if the ENV matches any of the expected config variable names.
…leInfo struct, and updating getDatasetFileInfo query to not populate removed fields
…ce with database.GetDatasetFileStableId, which just returns the file stable id instead of full FileInfo struct
jbygdell and others added 14 commits September 26, 2025 07:34
…ble-servicelinks

[Hotfix][charts] disable servicelinks
…setName}/files response example to reflect updated reponse after removal of fields
Bumps the all-modules group in /sda-doa with 2 updates: [io.minio:minio](https://github.com/minio/minio-java) and [no.elixir:clearinghouse](https://github.com/ELIXIR-NO/FEGA-Norway).


Updates `io.minio:minio` from 8.5.17 to 8.6.0
- [Release notes](https://github.com/minio/minio-java/releases)
- [Commits](minio/minio-java@8.5.17...8.6.0)

Updates `no.elixir:clearinghouse` from 3.0.8 to 3.0.9
- [Release notes](https://github.com/ELIXIR-NO/FEGA-Norway/releases)
- [Commits](ELIXIR-NO/FEGA-Norway@crypt4gh-3.0.8...crypt4gh-3.0.9)

---
updated-dependencies:
- dependency-name: io.minio:minio
  dependency-version: 8.6.0
  dependency-type: direct:production
  update-type: version-update:semver-minor
  dependency-group: all-modules
- dependency-name: no.elixir:clearinghouse
  dependency-version: 3.0.9
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps [snok/container-retention-policy](https://github.com/snok/container-retention-policy) from 3.0.0 to 3.0.1.
- [Release notes](https://github.com/snok/container-retention-policy/releases)
- [Commits](snok/container-retention-policy@v3.0.0...v3.0.1)

---
updated-dependencies:
- dependency-name: snok/container-retention-policy
  dependency-version: 3.0.1
  dependency-type: direct:production
  update-type: version-update:semver-patch
...

Signed-off-by: dependabot[bot] <support@github.com>
…da-doa/all-modules-0399ba42b4

Bump the all-modules group in /sda-doa with 2 updates
…actions/snok/container-retention-policy-3.0.1

Bump snok/container-retention-policy from 3.0.0 to 3.0.1
…ad_query_optimise_getFiles

Feature/sda download query optimise get files
Bumps the all-modules group in /sda-sftp-inbox with 2 updates: [org.junit:junit-bom](https://github.com/junit-team/junit-framework) and [com.amazonaws:aws-java-sdk-s3](https://github.com/aws/aws-sdk-java).


Updates `org.junit:junit-bom` from 5.13.4 to 6.0.0
- [Release notes](https://github.com/junit-team/junit-framework/releases)
- [Commits](junit-team/junit-framework@r5.13.4...r6.0.0)

Updates `com.amazonaws:aws-java-sdk-s3` from 1.12.791 to 1.12.792
- [Changelog](https://github.com/aws/aws-sdk-java/blob/master/CHANGELOG.md)
- [Commits](aws/aws-sdk-java@1.12.791...1.12.792)

---
updated-dependencies:
- dependency-name: org.junit:junit-bom
  dependency-version: 6.0.0
  dependency-type: direct:production
  update-type: version-update:semver-major
  dependency-group: all-modules
- dependency-name: com.amazonaws:aws-java-sdk-s3
  dependency-version: 1.12.792
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
Bumps the all-modules group in /sda-doa with 2 updates: [no.elixir:crypt4gh](https://github.com/ELIXIR-NO/FEGA-Norway) and [no.elixir:clearinghouse](https://github.com/ELIXIR-NO/FEGA-Norway).


Updates `no.elixir:crypt4gh` from 3.0.33 to 3.0.34
- [Release notes](https://github.com/ELIXIR-NO/FEGA-Norway/releases)
- [Commits](ELIXIR-NO/FEGA-Norway@crypt4gh-3.0.33...crypt4gh-3.0.34)

Updates `no.elixir:clearinghouse` from 3.0.9 to 3.0.10
- [Release notes](https://github.com/ELIXIR-NO/FEGA-Norway/releases)
- [Commits](ELIXIR-NO/FEGA-Norway@crypt4gh-3.0.9...crypt4gh-3.0.10)

---
updated-dependencies:
- dependency-name: no.elixir:crypt4gh
  dependency-version: 3.0.34
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
- dependency-name: no.elixir:clearinghouse
  dependency-version: 3.0.10
  dependency-type: direct:production
  update-type: version-update:semver-patch
  dependency-group: all-modules
...

Signed-off-by: dependabot[bot] <support@github.com>
…da-doa/all-modules-e24cc19bc5

Bump the all-modules group in /sda-doa with 2 updates
…da-sftp-inbox/all-modules-4913adf93c

Bump the all-modules group in /sda-sftp-inbox with 2 updates
# Conflicts:
#	charts/sda-db/Chart.yaml
#	charts/sda-mq/Chart.yaml
#	charts/sda-svc/Chart.yaml
@kkochel kkochel merged commit d950e61 into main Dec 4, 2025
38 of 40 checks passed
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5 participants