Bug: Fix SSERR evaluation to always use the flat config in line with current implementation

.github/workflows/docs.yml

@@ -27,26 +27,25 @@ jobs:
 
     steps:
       - name: Check out the repository
-        uses: actions/checkout@v4
+        uses: actions/checkout@v6
 
-      - name: Set up Python 3.12
-        uses: actions/setup-python@v5
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v7
         with:
-          python-version: "3.12"
+          version: "latest"
 
       - name: Install dependencies
         run: |
-          python -m pip install --upgrade pip
-          pip install sphinx sphinxawesome_theme IPython
-          pip install -e .
+          uv sync --extra docs
+          uv pip install IPython
 
       - name: Build documentation
         run: |
           # Clean any previous build artifacts
           make -C docs/sphinx clean
 
           # Generate API docs
-          sphinx-apidoc -o docs/sphinx/ src/weac --force --separate
+          uv run sphinx-apidoc -o docs/sphinx/ src/weac --force --separate
 
           # Build HTML docs (do not fail on warnings)
           make -C docs/sphinx html SPHINXOPTS="--keep-going -n"

.github/workflows/format.yml

@@ -14,21 +14,17 @@ jobs:
     name: Make sure code is ruff-formatted 🐶
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
 
-      - name: Set up Python 3.12
-        uses: actions/setup-python@v5
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v7
         with:
-          python-version: '3.12'
+          version: "latest"
 
       - name: Install dependencies
-        run: |
-          # Setup pip
-          python -m pip install --upgrade pip
-          # Install dependencies including ruff
-          python -m pip install -e ".[dev]"
+        run: uv sync --extra dev
 
       - name: Check formatting with ruff
         run: |
-          ruff format . --check
-          ruff check .
+          uv run ruff format . --check
+          uv run ruff check .

.github/workflows/pylint.yml

@@ -14,24 +14,21 @@ jobs:
     name: Static code analysis 🔎
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
 
-      - name: Set up Python 3.12
-        uses: actions/setup-python@v5
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v7
         with:
-          python-version: "3.12"
-          cache: "pip"
+          version: "latest"
 
       - name: Install dependencies
-        run: |
-          python -m pip install --upgrade pip
-          python -m pip install -e ".[dev]"
+        run: uv sync --extra dev
 
       - name: Run pylint analysis
         # Using repository pylint config (pyproject.toml) with comprehensive settings for scientific code
         run: |
           exit_code=0
-          python -m pylint --output-format=parseable --output=pylint-report.txt weac/ tests/ || exit_code=$?
+          uv run pylint --output-format=parseable --output=pylint-report.txt weac/ tests/ || exit_code=$?
           echo "Pylint finished with exit code $exit_code."
           echo
           echo "Pylint exit code meaning:"

.github/workflows/release.yml

@@ -12,21 +12,20 @@ jobs:
     runs-on: macos-latest
 
     steps:
-    - uses: actions/checkout@v4
-    - name: Set up Python
-      uses: actions/setup-python@v5
-      with:
-        python-version: '3.x'
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install build twine
-    - name: Build package
-      run: |
-        mkdir build
-        python -m build
-    - name: Publish package
-      env:
-        TWINE_USERNAME: __token__
-        TWINE_PASSWORD: ${{ secrets.PYPI_API_TOKEN }}
-      run: twine upload dist/*
+      - uses: actions/checkout@v6
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v7
+        with:
+          version: "0.9.x"
+
+      - name: Install dependencies
+        run: uv sync --extra build
+
+      - name: Build package
+        run: uv build
+
+      - name: Publish package
+        env:
+          TWINE_USERNAME: __token__
+          TWINE_PASSWORD: ${{ secrets.PYPI_API_TOKEN }}
+        run: uv run twine upload dist/*

.github/workflows/tests.yml

@@ -15,20 +15,15 @@ jobs:
     name: Run unit tests 🤖
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v4
+      - uses: actions/checkout@v6
 
-      - name: Set up Python 3.12
-        uses: actions/setup-python@v5
+      - name: Set up uv
+        uses: astral-sh/setup-uv@v7
         with:
-          python-version: "3.12"
-          cache: 'pip'
-          cache-dependency-path: |
-            pyproject.toml
-          check-latest: true
+          version: "latest"
+
       - name: Install dependencies
-        run: |
-          python -m pip install --upgrade pip
-          python -m pip install -e .
+        run: uv sync
 
       - name: Run tests
-        run: python tests/run_tests.py
+        run: uv run python tests/run_tests.py

.gitignore

@@ -21,7 +21,6 @@ dist/
 # Environments
 .venv/
 venv/
-.python-version
 .weac-reference/
 .venv*
 

.python-version

@@ -0,0 +1 @@
+3.12

README.md

@@ -68,12 +68,13 @@
 
 1. [About the project](#about-the-project)
 2. [Installation](#installation)
-3. [Usage](#usage)
-4. [Roadmap](#roadmap)
-5. [Release history](#release-history)
-6. [How to contribute](#how-to-contribute)
-7. [License](#license)
-8. [Contact](#contact)
+3. [Development Setup](#development-setup)
+4. [Usage](#usage)
+5. [Roadmap](#roadmap)
+6. [Release history](#release-history)
+7. [How to contribute](#how-to-contribute)
+8. [License](#license)
+9. [Contact](#contact)
 
 <!-- ABOUT THE PROJECT -->
 ## About the project
@@ -129,6 +130,100 @@ Needs (runtime dependencies are declared in [pyproject.toml](https://github.com/
 - [Snowpylot](https://github.com/connellymk/snowpylot) ≥ 1.1.3
 
 
+<!-- DEVELOPMENT SETUP -->
+## Development Setup
+
+This project uses [uv](https://github.com/astral-sh/uv) for fast Python package management and project handling.
+
+### Installing uv
+
+Install uv following the [official installation guide](https://github.com/astral-sh/uv#installation):
+
+```bash
+# On macOS and Linux
+curl -LsSf https://astral.sh/uv/install.sh | sh
+
+# Using pip (alternative)
+pip install uv
+```
+
+### Setting up the development environment
+
+Clone the repository and set up the development environment:
+
+```bash
+git clone https://github.com/2phi/weac
+cd weac
+
+# Install Python 3.12+ if not already available
+# uv will automatically use the version specified in .python-version
+
+# For basic setup (if only running the package):
+uv sync
+
+# For development (recommended for contributors):
+uv sync --extra dev
+
+# Activate the virtual environment
+source .venv/bin/activate  # On Windows: .venv\Scripts\activate
+```
+
+### Running tests
+
+Run the test suite using uv:
+
+```bash
+# Run all tests
+uv run python tests/run_tests.py
+
+# Or use pytest directly (if installed)
+uv run pytest
+```
+
+### Code formatting and linting
+
+This project uses [ruff](https://github.com/astral-sh/ruff) for fast Python linting and formatting:
+
+```bash
+# Format code
+uv run ruff format .
+
+# Check for linting issues
+uv run ruff check .
+
+# Fix auto-fixable linting issues
+uv run ruff check . --fix
+```
+
+### Building the package
+
+Build the package for distribution:
+
+```bash
+# Build wheel and source distribution
+uv build
+
+# Install in editable mode for development
+uv pip install -e .
+```
+
+### Additional uv commands
+
+```bash
+# Update dependencies
+uv sync --upgrade
+
+# Add a new dependency
+uv add package-name
+
+# Add a development dependency
+uv add --dev package-name
+
+# Show environment info
+uv run python --version
+uv run pip list
+```
+
 <!-- USAGE EXAMPLES -->
 ## Usage
 

pyproject.toml

@@ -46,6 +46,7 @@ interactive = [
     "traitlets>=5.14.3",
 ]
 docs = ["sphinx", "sphinxawesome-theme"]
+build = ["build", "twine"]
 dev = [
     # Notebook execution (to run demo.ipynb non-interactively)
     "nbclient>=0.10.0",
@@ -73,9 +74,6 @@ dev = [
 
     # Versioning helper matching [tool.bumpversion]
     "bump-my-version", # e.g. bump-my-version bump patch
-
-    # Building for Testing
-    "build",
 ]
 
 [tool.setuptools]