Derive File-Accession mappings from AltAccessions - Update for Apollo Epic (GSI-2265)

.devcontainer/.dev_config.yaml

@@ -20,7 +20,7 @@ research_data_upload_box_topic: upload-boxes
 dataset_change_topic: metadata-datasets
 dataset_upsertion_type: dataset_created
 dataset_deletion_type: dataset_deleted
-accession_map_topic: accession-maps
+alt_accession_topic: alt-accessions
 
 # the default keys are invalid but set for creating the example specs
 auth_key: "{}"

.github/workflows/check_config_docs.yaml

@@ -11,11 +11,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.github/workflows/check_openapi_spec.yaml

@@ -12,11 +12,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.github/workflows/check_pyproject.yaml

@@ -11,11 +11,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.github/workflows/check_readme.yaml

@@ -11,11 +11,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.github/workflows/check_template_files.yaml

@@ -11,7 +11,7 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Set up Python 3.13
         id: setup-python

.github/workflows/ci_release.yaml

@@ -15,7 +15,7 @@ jobs:
     runs-on: ubuntu-latest
 
     steps:
-      - uses: ghga-de/gh-action-ci@v1
+      - uses: ghga-de/gh-action-ci@v2
         with:
           tag: ${{ github.event.release.tag_name }}
           dockerhub_username: ${{ secrets.DOCKERHUB_USERNAME }}

.github/workflows/ci_workflow_dispatch.yaml

@@ -16,7 +16,7 @@ jobs:
     if:  github.event_name == 'workflow_dispatch' || ( github.event.action != 'labeled' && contains(github.event.pull_request.labels.*.name, 'build') ) || ( github.event.action == 'labeled' && github.event.label.name == 'build' )
     steps:
       - id: fetch-tag
-        uses: ghga-de/gh-action-fetch-tag@v1
+        uses: ghga-de/gh-action-fetch-tag@v2
     outputs:
       latest_tag: ${{ steps.fetch-tag.outputs.latest_tag }}
 
@@ -25,7 +25,7 @@ jobs:
     needs: fetch-tag
     runs-on: ubuntu-latest
     steps:
-      - uses: ghga-de/gh-action-ci@v1
+      - uses: ghga-de/gh-action-ci@v2
         with:
           tag: ${{ needs.fetch-tag.outputs.latest_tag }}-${{ github.sha }}
           dockerhub_username: ${{ secrets.DOCKERHUB_USERNAME }}

.github/workflows/static_code_analysis.yaml

@@ -11,11 +11,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.github/workflows/tests.yaml

@@ -11,11 +11,11 @@ jobs:
     steps:
       - name: Checkout repository
         id: checkout
-        uses: actions/checkout@v5
+        uses: actions/checkout@v6
 
       - name: Common steps
         id: common
-        uses: ghga-de/gh-action-common@v6
+        uses: ghga-de/gh-action-common@v7
         with:
           python-version: '3.13'
 

.gitignore

@@ -143,3 +143,8 @@ dmypy.json
 .DS_Store
 desktop.ini
 thumbs.db
+
+# LLM Stuff
+CLAUDE.local.md
+.claude/settings.local.json
+.claude/agent-memory-local/

.pre-commit-config.yaml

@@ -45,13 +45,13 @@ repos:
       - id: no-commit-to-branch
         args: [--branch, dev, --branch, int, --branch, main]
   - repo: https://github.com/astral-sh/ruff-pre-commit
-    rev: v0.15.6
+    rev: v0.15.8
     hooks:
       - id: ruff
         args: [--fix, --exit-non-zero-on-fix]
       - id: ruff-format
   - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v1.19.1
+    rev: v1.20.0
     hooks:
       - id: mypy
         args: [--no-warn-unused-ignores]

.pyproject_generation/pyproject_custom.toml

@@ -1,6 +1,6 @@
 [project]
 name = "wps"
-version = "9.0.0"
+version = "10.0.0"
 description = "Work Package Service"
 dependencies = [
     "ghga-event-schemas~=12.0.0",

README.md

@@ -52,21 +52,21 @@ We recommend using the provided Docker container.
 
 A pre-built version is available on [Docker Hub](https://hub.docker.com/repository/docker/ghga/work-package-service):
 ```bash
-docker pull ghga/work-package-service:9.0.0
+docker pull ghga/work-package-service:10.0.0
 ```
 
 Or you can build the container yourself from the [`./Dockerfile`](./Dockerfile):
 ```bash
 # Execute in the repo's root dir:
-docker build -t ghga/work-package-service:9.0.0 .
+docker build -t ghga/work-package-service:10.0.0 .
 ```
 
 For production-ready deployment, we recommend using Kubernetes.
 However for simple use cases, you could execute the service using docker
 on a single server:
 ```bash
 # The entrypoint is pre-configured:
-docker run -p 8080:8080 ghga/work-package-service:9.0.0 --help
+docker run -p 8080:8080 ghga/work-package-service:10.0.0 --help
 ```
 
 If you prefer not to use containers, you may install the service from source:
@@ -112,7 +112,7 @@ The service requires the following configuration parameters:
 - <a id="properties/datasets_collection"></a>**`datasets_collection`** *(string)*: The name of the database collection for datasets. Default: `"datasets"`.
 - <a id="properties/upload_boxes_collection"></a>**`upload_boxes_collection`** *(string)*: The name of the database collection for upload boxes. Default: `"uploadBoxes"`.
 - <a id="properties/work_packages_collection"></a>**`work_packages_collection`** *(string)*: The name of the database collection for work packages. Default: `"workPackages"`.
-- <a id="properties/accession_maps_collection"></a>**`accession_maps_collection`** *(string)*: The name of the database collection for file accession maps. Default: `"accessionMaps"`.
+- <a id="properties/alt_accessions_collection"></a>**`alt_accessions_collection`** *(string)*: The name of the database collection for file accession maps. Default: `"accessionMaps"`.
 - <a id="properties/work_package_valid_days"></a>**`work_package_valid_days`** *(integer)*: How many days a work package (and its access token) stays valid. Default: `30`.
 - <a id="properties/work_package_signing_key"></a>**`work_package_signing_key`** *(string, format: password, required and write-only)*: The private key for signing work order tokens.
 
@@ -325,15 +325,11 @@ The service requires the following configuration parameters:
   "research-data-upload-boxes"
   ```
 
-- <a id="properties/accession_map_topic"></a>**`accession_map_topic`** *(string, required)*: The name of the topic used for file accession map events.
+- <a id="properties/alt_accession_topic"></a>**`alt_accession_topic`** *(string, required)*: The name of the topic used for AltAccession events.
 
   Examples:
   ```json
-  "accession-maps"
-  ```
-
-  ```json
-  "file-accession-maps"
+  "alt-accessions"
   ```
 
 - <a id="properties/dataset_change_topic"></a>**`dataset_change_topic`** *(string, required)*: Name of the topic announcing, among other things, the list of files included in a new dataset.

config_schema.json

@@ -84,10 +84,10 @@
       "title": "Work Packages Collection",
       "type": "string"
     },
-    "accession_maps_collection": {
+    "alt_accessions_collection": {
       "default": "accessionMaps",
       "description": "The name of the database collection for file accession maps",
-      "title": "Accession Maps Collection",
+      "title": "Alt Accessions Collection",
       "type": "string"
     },
     "work_package_valid_days": {
@@ -328,13 +328,12 @@
       "title": "Research Data Upload Box Topic",
       "type": "string"
     },
-    "accession_map_topic": {
-      "description": "The name of the topic used for file accession map events",
+    "alt_accession_topic": {
+      "description": "The name of the topic used for AltAccession events",
       "examples": [
-        "accession-maps",
-        "file-accession-maps"
+        "alt-accessions"
       ],
-      "title": "Accession Map Topic",
+      "title": "Alt Accession Topic",
       "type": "string"
     },
     "dataset_change_topic": {
@@ -575,7 +574,7 @@
     "migration_wait_sec",
     "kafka_servers",
     "research_data_upload_box_topic",
-    "accession_map_topic",
+    "alt_accession_topic",
     "dataset_change_topic",
     "dataset_deletion_type",
     "dataset_upsertion_type",

example_config.yaml

@@ -1,6 +1,6 @@
 access_url: http://127.0.0.1:8080/
-accession_map_topic: accession-maps
-accession_maps_collection: accessionMaps
+alt_accession_topic: alt-accessions
+alt_accessions_collection: accessionMaps
 api_root_path: ''
 auth_algs:
 - ES256