Merge branch 'main' into test-suite

Author: fkiraly

.github/dependabot.yml

@@ -1,39 +1,20 @@
 version: 2
 updates:
-- package-ecosystem: pip
-  directory: "/"
-  schedule:
-    interval: daily
-  open-pull-requests-limit: 10
-  labels:
-  - dependencies
-  ignore:
-  - dependency-name: black
-    versions:
-    - 21.4b0
-    - 21.4b1
-  - dependency-name: pylint
-    versions:
-    - 2.7.1
-    - 2.8.1
-    - 2.8.2
-  - dependency-name: pyarrow
-    versions:
-    - 4.0.0
-  - dependency-name: nbsphinx
-    versions:
-    - 0.8.3
-  - dependency-name: pytorch-lightning
-    versions:
-    - 1.2.0
-    - 1.2.10
-    - 1.2.8
-    - 1.2.9
-  - dependency-name: flake8
-    versions:
-    - 3.9.1
-  - dependency-name: pydata-sphinx-theme
-    versions:
-    - 0.6.0
-    - 0.6.1
-    - 0.6.2
+  - package-ecosystem: "pip"
+    directory: "/"
+    schedule:
+      interval: "daily"
+    commit-message:
+      prefix: "[MNT] [Dependabot]"
+      include: "scope"
+    labels:
+      - "maintenance"
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "daily"
+    commit-message:
+      prefix: "[MNT] [Dependabot]"
+      include: "scope"
+    labels:
+      - "maintenance"

.github/workflows/autoapprove.yml renamed to .github/workflows/autoapprove.yml.disabled

@@ -72,6 +72,9 @@ jobs:
     runs-on: ubuntu-latest
     needs: [pytest-nosoftdeps]
 
+    permissions:
+      id-token: write
+
     steps:
       - uses: actions/download-artifact@v4
         with:
@@ -81,5 +84,4 @@ jobs:
       - name: Publish package to PyPI
         uses: pypa/gh-action-pypi-publish@release/v1
         with:
-          password: ${{ secrets.PYPI_API_TOKEN }}
           packages-dir: wheelhouse/

.github/workflows/automerge.yml renamed to .github/workflows/automerge.yml.disabled

@@ -14,7 +14,47 @@ concurrency:
   cancel-in-progress: true
 
 jobs:
+  code-quality:
+    name: code-quality
+    runs-on: ubuntu-latest
+    steps:
+      - name: repository checkout step
+        uses: actions/checkout@v4
+
+      - name: python environment step
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.11"
+
+      - name: install pre-commit
+        run: python3 -m pip install pre-commit
+
+      - name: Checkout code
+        uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
+
+      - name: Get changed files
+        id: changed-files
+        run: |
+          CHANGED_FILES=$(git diff --name-only ${{ github.event.pull_request.base.sha }} ${{ github.sha }} | tr '\n' ' ')
+          echo "CHANGED_FILES=${CHANGED_FILES}" >> $GITHUB_ENV
+
+      - name: Print changed files
+        run: |
+          echo "Changed files:" && echo "$CHANGED_FILES" | tr ' ' '\n'
+
+      - name: Run pre-commit on changed files
+        run: |
+          if [ -n "$CHANGED_FILES" ]; then
+            pre-commit run --color always --files $CHANGED_FILES --show-diff-on-failure
+          else
+            echo "No changed files to check."
+          fi
+
   run-notebook-tutorials:
+    name: Run notebook tutorials
+    needs: code-quality
     runs-on: ubuntu-latest
     steps:
       - uses: actions/checkout@v4
@@ -36,6 +76,7 @@ jobs:
 
   pytest-nosoftdeps:
     name: no-softdeps
+    needs: code-quality
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
@@ -75,6 +116,7 @@ jobs:
 
   pytest:
     name: Run pytest
+    needs: pytest-nosoftdeps
     runs-on: ${{ matrix.os }}
     strategy:
       fail-fast: false
@@ -119,7 +161,7 @@ jobs:
           coverage xml
 
       - name: Upload coverage to Codecov
-        uses: codecov/codecov-action@v1
+        uses: codecov/codecov-action@v5
         if: always()
         continue-on-error: true
         with:

.github/workflows/lint.yml

@@ -23,12 +23,11 @@ Otherwise, you can proceed with
 
 
 Alternatively, to install the package via ``conda``:
-
 .. code-block:: bash
 
     conda install pytorch-forecasting pytorch>=1.7 -c pytorch -c conda-forge
 
-PyTorch Forecasting is now installed from the conda-forge channel while PyTorch is install from the pytorch channel.
+PyTorch Forecasting is now installed from the conda-forge channel while PyTorch is installed from the pytorch channel.
 
 To use the MQF2 loss (multivariate quantile loss), also install
 
@@ -54,7 +53,7 @@ The general setup for training and testing a model is
    Similarly, a test dataset or later a dataset for inference can be created. You can store the dataset parameters
    directly if you do not wish to load the entire training dataset at inference time.
 
-#. Instantiate a model using the its ``.from_dataset()`` method.
+#. Instantiate a model using the ``.from_dataset()`` method.
 #. Create a ``lightning.Trainer()`` object.
 #. Find the optimal learning rate with its ``.tuner.lr_find()`` method.
 #. Train the model with early stopping on the training dataset and use the tensorboard logs
@@ -65,7 +64,7 @@ The general setup for training and testing a model is
 #. Load the model from the model checkpoint and apply it to new data.
 
 
-The :ref:`Tutorials <tutorials>` section provides detailled guidance and examples on how to use models and implement new ones.
+The :ref:`Tutorials <tutorials>` section provides detailed guidance and examples on how to use models and implement new ones.
 
 
 Example

.github/workflows/pypi_release.yml

@@ -107,7 +107,7 @@ dev = [
 
 # docs - dependencies for building the documentation
 docs = [
-  "sphinx>3.2,<7.2.6",
+  "sphinx>3.2,<8.2.4",
   "pydata-sphinx-theme",
   "nbsphinx",
   "pandoc",