Merge branch 'main' into restructure-docs

.github/workflows/github-actions.yml

@@ -8,7 +8,7 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_env_no_gpu.yml
@@ -42,7 +42,7 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_env_no_gpu.yml
@@ -83,7 +83,7 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_preprocessing_env.yml
@@ -116,7 +116,7 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_preprocessing_env.yml
@@ -136,7 +136,7 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_preprocessing_env.yml
@@ -177,7 +177,7 @@ jobs:
 
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_preprocessing_env.yml

.github/workflows/test-runner.yml

@@ -8,7 +8,8 @@ jobs:
     steps:
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_env_no_gpu.yml
@@ -19,16 +20,16 @@ jobs:
         run: pip install -e ${{ github.workspace }}
         shell: micromamba-shell {0}
       - name: Run pytest deeprvat
-        run: pytest -v ${{ github.workspace }}/tests/deeprvat
+        run: pytest -n auto -v ${{ github.workspace }}/tests/deeprvat
         shell: micromamba-shell {0}
 
   DeepRVAT-Tests-Runner-Preprocessing:
     runs-on: ubuntu-latest
     steps:
-
       - name: Check out repository code
         uses: actions/checkout@v4
-      - uses: mamba-org/setup-micromamba@v1.8.0
+
+      - uses: mamba-org/setup-micromamba@v1.8.1
         with:
           environment-name: deeprvat-preprocess-gh-action
           environment-file: ${{ github.workspace }}/deeprvat_preprocessing_env.yml
@@ -42,3 +43,23 @@ jobs:
       - name: Run pytest preprocessing
         run: pytest -v ${{ github.workspace }}/tests/preprocessing
         shell: micromamba-shell {0}
+
+  DeepRVAT-Tests-Runner-Annotations:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Check out repository code
+        uses: actions/checkout@v4
+      - uses: mamba-org/setup-micromamba@v1.8.1
+        with:
+          environment-name: deeprvat-annotation-gh-action
+          environment-file: ${{ github.workspace }}/deeprvat_annotations.yml
+          cache-environment: true
+          cache-downloads: true
+
+      - name: Install DeepRVAT
+        run: pip install -e ${{ github.workspace }}
+        shell: micromamba-shell {0}
+
+      - name: Run pytest annotations
+        run: pytest -n auto -v ${{ github.workspace }}/tests/annotations
+        shell: micromamba-shell {0}

.readthedocs.yaml

@@ -7,7 +7,7 @@ version: 2
 
 # Set the OS, Python version and other tools you might need
 build:
-  os: ubuntu-22.04
+  os: ubuntu-lts-latest
   tools:
     python: "3.12"