v0.6.0

.github/workflows/build-docs.yml

@@ -9,36 +9,24 @@ jobs:
      runs-on: ubuntu-latest
      steps:
       - uses: actions/checkout@v4
-      - id: setup-python
-        uses: actions/setup-python@v5
+      - name: Install uv and set the Python version
+        uses: astral-sh/setup-uv@v7
         with:
-          python-version: "3.11"
-      - name: Install Poetry
-        uses: snok/install-poetry@v1
-        with:
-            virtualenvs-create: true
-            virtualenvs-in-project: true
-            installer-parallel: true
-
-      - name: Load cached venv
-        id: cached-poetry-dependencies
-        uses: actions/cache@v3
-        with:
-            path: .venv
-            key: venv-${{ runner.os }}-${{ steps.setup-python.outputs.python-version }}-${{ hashFiles('**/poetry.lock') }}          
-
-      - name: Install dependencies
-        if: steps.cached-poetry-dependencies.outputs.cache-hit != 'true'
-        run: poetry install --no-interaction --with docs
+          python-version: "3.12"
+          enable-cache: true
+
+      - name: Install Project
+        run: 
+          uv sync --group docs
       - name: Quardo Doc Build
         run: |
             cd docs
-            poetry run quartodoc build
-            poetry run python objects.py            
-            poetry run quartodoc interlinks
+            uv run quartodoc build
+            uv run python objects.py            
+            uv run quartodoc interlinks
       - uses: quarto-dev/quarto-actions/setup@v2
       - name: Render and publish to gh pages
         run: |
           git config --global user.email "quarto-github-actions-publish@example.com"
           git config --global user.name "Quarto GHA Workflow Runner"
-          poetry run quarto publish gh-pages docs --no-browser
+          uv run quarto publish gh-pages docs --no-browser

.github/workflows/pypi-publish.yml

@@ -9,10 +9,20 @@ on:
 jobs:
   publish:
     runs-on: ubuntu-latest
+    environment:
+      name: pypi
+    permissions:
+      id-token: write
+      contents: read    
     steps:
       - uses: actions/checkout@v4
         with: 
           ref: main
-      - uses: JRubics/poetry-publish@v2.0
+      - name: Install uv and set the Python version
+        uses: astral-sh/setup-uv@v7
         with:
-          pypi_token: ${{ secrets.PYPI_TOKEN }}
+          python-version: "3.12"
+      - name: Build
+        run: uv build
+      - name: Publish
+        run: uv publish        

.github/workflows/test-and-run.yml

@@ -12,36 +12,27 @@ jobs:
       matrix:
         python-version: ["3.10", "3.11", "3.12", "3.13"]
         os: [ubuntu-latest, windows-latest, macos-latest]
-        exclude:
-          - os: windows-latest
-            python-version: "3.9"
-
       fail-fast: false
 
     runs-on: ${{ matrix.os }}
 
     steps:
     - uses: actions/checkout@v4
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v5
+    # - name: Set up Python ${{ matrix.python-version }}
+    #   uses: actions/setup-python@v5
+    #   with:
+    #     python-version: ${{ matrix.python-version }}
+    #     cache: "pip"
+    - name: Install uv and set the Python version
+      uses: astral-sh/setup-uv@v7
       with:
         python-version: ${{ matrix.python-version }}
-        cache: "pip"
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        python -m pip install flake8 pytest pytest-cov codecov
-        pip install -e .
-    - name: Lint with flake8
-      run: |
-        # stop the build if there are Python syntax errors or undefined names
-        flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
-        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
-        flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+        enable-cache: true
+    - name: Install project
+      run: uv sync --group test
     - name: Test with pytest
-      run: |
-        python -m pytest --cov=./ --cov-report=xml tests/ -p no:faulthandler
+      run: uv run pytest
     - name: Upload coverage reports to Codecov
-      uses: codecov/codecov-action@v4
-      env:
-        CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}
+      uses: codecov/codecov-action@v4.0.1
+      with:
+        token: ${{ secrets.CODECOV_TOKEN }}        

main.py

@@ -0,0 +1,6 @@
+def main():
+    print("Hello from fasttrackpy!")
+
+
+if __name__ == "__main__":
+    main()

pyproject.toml

@@ -1,75 +1,77 @@
-[tool.poetry]
+[project]
 name = "fasttrackpy"
-version = "0.5.5"
+version = "0.6.0"
+requires-python = ">=3.10,<3.14"
 description = "A python implementation of FastTrack"
 authors = [
-    "JoFrhwld <JoFrhwld@gmail.com>",
-    "santiagobarreda <sbarreda@ucdavis.edu>"
+  {name="Josef Fruehwald", email="JoFrhwld@gmail.com"},
+  {name = "Santiago Barreda", email = "sbarreda@ucdavis.edu"}
 ]
 license = "MIT"
 readme = "README.md"
-packages = [{include = "fasttrackpy", from="src"}]
-exclude = [
-    "notebooks/",
-    "examples/",
-    "docs/"
+dependencies = [
+    "aligned-textgrid>=0.8.1",
+    "click>=8.3.1",
+    "cloudpickle>=3.1.2",
+    "cloup>=3.0.8",
+    "filetype>=1.2.0",
+    "joblib>=1.5.3",
+    "matplotlib>=3.10.8",
+    "numba>=0.61.0",
+    "polars>=1.38.1",
+    "praat-parselmouth>=0.4.7",
+    "pyyaml>=6.0.3",
+    "scipy>=1.15.3",
+    "tqdm>=4.67.3",
 ]
-homepage = "https://fasttrackiverse.github.io/fasttrackpy/"
-repository = "https://github.com/FastTrackiverse/fasttrackpy"
 
-[tool.poetry.dependencies]
-python = ">=3.10,<3.14"
-praat-parselmouth = "^0.4.3"
-scipy = {version = "^1.11.3", python = ">=3.10,<3.14"}
-pytest-cov = "^4.1.0"
-pytest = "^7.4.3"
-click = "^8.1.7"
-cloup = "^3.0.3"
-matplotlib = "^3.8.2"
-tqdm = "^4.66.1"
-joblib = "^1.5.3"
-pyyaml = "^6.0.1"
-cloudpickle = "^3.0.0"
-numba = "^0.61.0"
-polars = "^1.23.0"
-aligned-textgrid = "^0.8"
-filetype = "^1.2.0"
-
-[tool.poetry.group.dev.dependencies]
-jupyter = "^1.0.0"
-pytest = "^7.4.3"
-plotly = "^5.18.0"
-pandas = "^2.1.2"
-ipython = "^8.17.2"
-kaleido = "0.2.1"
-pillow = "^10.2.0"
-
-
-[tool.poetry.group.docs.dependencies]
-quartodoc = "^0.6.5"
-nbformat = "^5.9.2"
-jupyter = "^1.0.0"
-ipython = "^8.18.0"
-hvplot = "^0.9.2"
-pyarrow = "^19.0.1"
+[project.urls]
+Homepage = "https://fasttrackiverse.github.io/fasttrackpy/"
+Repository = "https://github.com/FastTrackiverse/fasttrackpy"
 
 [build-system]
-requires = ["poetry-core"]
-build-backend = "poetry.core.masonry.api"
+requires = ["uv_build>=0.10.0,<0.11.0"]
+build-backend = "uv_build"
+
 
 [tool.pytest.ini_options]
 addopts = [
     "--import-mode=importlib",
     "--cov-config=tests/.coveragerc",
     "--cov-report=xml",
     "--cov",
-    "--log-cli-level=INFO"
+    "--log-cli-level=CRITICAL"
 ]
 filterwarnings =[
-    "ignore::UserWarning"
+    "ignore::UserWarning",
+    "ignore::DeprecationWarning"
 ]
+
 pythonpath = "src"
 testpaths = "tests"
 
-[tool.poetry.scripts]
-fasttrack = 'fasttrackpy.cli:fasttrack'
+[dependency-groups]
+dev = [
+    "altair>=6.0.0",
+    "ipython>=8.38.0",
+    "jupyter>=1.1.1",
+    "kaleido>=1.2.0",
+    "pandas>=2.3.3",
+    "pillow>=12.1.0",
+    "plotly>=6.5.2",
+]
+docs = [
+    "hvplot>=0.12.2",
+    "ipython>=8.38.0",
+    "jupyter>=1.1.1",
+    "pyarrow>=23.0.0",
+    "quartodoc>=0.11.1",
+]
+test = [
+    "pytest>=9.0.2",
+    "pytest-cov>=7.0.0",
+    "pytest-datafiles>=3.0.1",
+]
+
+[project.scripts]
+fasttrack = 'fasttrackpy.cli:fasttrack'