merge dev

Author: eodole

.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,36 @@
+---
+name: Bug report
+about: Create a bug report to help us improve BayesFlow
+title: "[BUG]"
+labels: ''
+assignees: ''
+
+---
+
+**Describe the bug**
+A clear and concise description of what the bug is.
+
+**To Reproduce**
+Minimal steps to reproduce the behavior:
+1. Import '...'
+2. Create network '....'
+3. Call '....'
+4. See error
+
+**Expected behavior**
+A clear and concise description of what you expected to happen.
+
+**Traceback**
+If you encounter an error, please provide a complete traceback to help explain your problem.
+
+**Environment**
+- OS: [e.g. Ubuntu]
+- Python Version: [e.g. 3.11]
+- Backend: [e.g. jax, tensorflow, pytorch]
+- BayesFlow Version: [e.g. 2.0.2]
+
+**Additional context**
+Add any other context about the problem here.
+
+**Minimality**
+- [ ] I verify that my example is minimal, does not rely on third-party packages, and is most likely an issue in BayesFlow.

.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,20 @@
+---
+name: Feature request
+about: Suggest a new feature to be implemented in BayesFlow
+title: "[FEATURE]"
+labels: feature
+assignees: ''
+
+---
+
+**Is your feature request related to a problem? Please describe.**
+A clear and concise description of what the problem is. Ex. I'm always frustrated when [...]
+
+**Describe the solution you'd like**
+A clear and concise description of what you want to happen.
+
+**Describe alternatives you've considered**
+A clear and concise description of any alternative solutions or features you've considered.
+
+**Additional context**
+Add any other context or screenshots about the feature request here.

.github/workflows/publish.yaml

@@ -1,18 +1,53 @@
+name: Publish Python 🐍 distribution 📦 to PyPI
 
-name: Publish to PyPI.org
 on:
   release:
     types: [published]
+
 jobs:
-  pypi:
+  build:
+    name: Build distribution 📦
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/checkout@v4
+      with:
+        persist-credentials: false
+    - name: Set up Python
+      uses: actions/setup-python@v5
+      with:
+        python-version: "3.x"
+    - name: Install pypa/build
+      run: >-
+        python3 -m
+        pip install
+        build
+        --user
+    - name: Build a binary wheel and a source tarball
+      run: python3 -m build
+    - name: Store the distribution packages
+      uses: actions/upload-artifact@v4
+      with:
+        name: python-package-distributions
+        path: dist/
+
+  publish-to-pypi:
+    name: >-
+      Publish Python 🐍 distribution 📦 to PyPI
+    needs:
+    - build
     runs-on: ubuntu-latest
+    environment:
+      name: pypi
+      url: https://pypi.org/p/bayesflow  # Replace <package-name> with your PyPI project name
+    permissions:
+      id-token: write  # IMPORTANT: mandatory for trusted publishing
+
     steps:
-      - name: Checkout
-        uses: actions/checkout@v4
-        with:
-          fetch-depth: 0
-      - run: python3 -m pip install -U build && python3 -m build
-      - name: Publish package
-        uses: pypa/gh-action-pypi-publish@release/v1
-        with:
-          password: ${{ secrets.PYPI_API_TOKEN }}
+    - name: Download all the dists
+      uses: actions/download-artifact@v4
+      with:
+        name: python-package-distributions
+        path: dist/
+    - name: Publish distribution 📦 to PyPI
+      uses: pypa/gh-action-pypi-publish@release/v1

.github/workflows/style.yaml

@@ -0,0 +1,38 @@
+name: Check Code Style
+
+on:
+  workflow_dispatch:
+  pull_request:
+    branches:
+      - main
+      - dev
+  push:
+    branches:
+      - main
+      - dev
+
+jobs:
+  check-code-style:
+    name: Check Code Style
+
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout Repository
+        uses: actions/checkout@v4
+
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.10"
+
+      - name: Install Ruff
+        run: |
+          pip install -U pip setuptools wheel
+          pip install ruff
+
+      - name: Run Linter
+        run: ruff check --config pyproject.toml --verbose
+
+      - name: Run Formatter
+        run: ruff format --config pyproject.toml --check --verbose

.github/workflows/tests.yaml

@@ -1,5 +1,5 @@
 
-name: Tests
+name: Multi-Backend Tests
 
 on:
   workflow_dispatch:
@@ -12,93 +12,80 @@ on:
       - main
       - dev
 
+defaults:
+  run:
+    shell: bash
 
-jobs:
-  lint:
-    runs-on: ubuntu-latest
-    defaults:
-      run:
-        shell: bash -el {0}
-
-    steps:
-      - name: Checkout code
-        uses: actions/checkout@v4
-
-      - name: Set up Conda
-        uses: conda-incubator/setup-miniconda@v3
-        with:
-          environment-file: environment.yaml
-          python-version: "3.10"
-
-      - name: Show Environment Info
-        run: |
-          conda info
-          conda list
-          conda config --show-sources
-          conda config --show
-          printenv | sort
-
-      - name: Run Linter
-        run: |
-          ruff check --config pyproject.toml --verbose
-
-      - name: Run Formatter
-        run: |
-          ruff format --check --config pyproject.toml --verbose
 
+jobs:
   test:
-    runs-on: ${{ matrix.os }}
+    name: Run Multi-Backend Tests
+
     strategy:
-      fail-fast: false
       matrix:
         os: [ubuntu-latest, windows-latest]
-        python-version: ["3.10", "3.11"]
+        python-version: ["3.10"]  # we usually only need to test the oldest python version
         backend: ["jax", "tensorflow", "torch"]
-    defaults:
-      run:
-        shell: bash -el {0}
+
+    runs-on: ${{ matrix.os }}
+
     env:
       KERAS_BACKEND: ${{ matrix.backend }}
 
     steps:
-      - name: Checkout code
+      - name: Checkout Repository
         uses: actions/checkout@v4
 
-      - name: Set up Conda
-        uses: conda-incubator/setup-miniconda@v3
+      - name: Set up Python
+        uses: actions/setup-python@v5
         with:
-          environment-file: environment.yaml
           python-version: ${{ matrix.python-version }}
 
+      - name: Install Dependencies
+        run: |
+          python -m pip install -U pip setuptools wheel
+          pip install .[test]
+
       - name: Install JAX
         if: ${{ matrix.backend == 'jax' }}
         run: |
           pip install -U jax
-      - name: Install NumPy
-        if: ${{ matrix.backend == 'numpy' }}
-        run: |
-          conda install numpy
-      - name: Install Tensorflow
+
+      - name: Install TensorFlow
         if: ${{ matrix.backend == 'tensorflow' }}
         run: |
           pip install -U tensorflow
+
       - name: Install PyTorch
         if: ${{ matrix.backend == 'torch' }}
         run: |
-          conda install pytorch torchvision torchaudio cpuonly -c pytorch
+          pip install -U torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cpu
 
       - name: Show Environment Info
         run: |
-          conda info
-          conda list
-          conda config --show-sources
-          conda config --show
+          python --version
+          pip --version
           printenv | sort
-          conda env export
+          pip list
 
       - name: Run Tests
         run: |
-          pytest -x
+          pytest -x -m "not slow"
+
+      - name: Run Slow Tests
+        # Run slow tests on manual trigger and pushes/PRs to main.
+        # Limit to one OS and Python version to save compute.
+        # Multiline if statements are weird, https://github.com/orgs/community/discussions/25641,
+        # but feel free to convert it.
+        if: ${{ ((github.event_name == 'workflow_dispatch') || (github.event_name == 'push' && github.ref_name == 'main') || (github.event_name == 'pull_request' && github.base_ref == 'main')) && ((matrix.os == 'windows-latest') && (matrix.python-version == '3.10')) }}
+        run: |
+          pytest -m "slow"
+
+      - name: Upload test results to Codecov
+        if: ${{ !cancelled() }}
+        uses: codecov/codecov-action@v4
+        with:
+          token: ${{ secrets.CODECOV_TOKEN }}
 
       - name: Create Coverage Report
         run: |