Infra/uv update

.github/workflows/build-docs.yml

@@ -9,33 +9,29 @@ jobs:
       runs-on: ubuntu-latest
       steps:
       - uses: actions/checkout@v4
-      - id: setup-python
-        uses: actions/setup-python@v5
+      - name: Install uv
+        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: Install dependencies
-        run: poetry install --no-interaction --with docs
-      - name: Quarto Doc Build
+          enable-cache: true       
+          python-version: "3.12"                           
+      - name: Install project
+        run: uv sync --group docs
+      - name: Run quartodoc build
         run: |
-            cd docs
-            poetry run quartodoc build
-            poetry run python objects.py            
-            poetry run quartodoc interlinks
-      - uses: quarto-dev/quarto-actions/setup@v2
+          cd docs
+          uv run quartodoc build
+          uv run python objects.py
+          uv run quartodoc interlinks
+      - name: Setup quarto
+        uses: quarto-dev/quarto-actions/setup@v2
       - name: Load cached quarto freeze
         id: cached-quarto-freeze
         uses: actions/cache@v3
         with:
             path: docs/_freeze
             key: ${{ runner.os }}-freeze
-      - name: Render and publish to gh pages
+      - name: Render and publush 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/dev-tag.yml

@@ -0,0 +1,34 @@
+name: Dev Tag
+
+on:        
+  pull_request:
+    types:
+      - closed
+    branches:
+      - 'dev'
+
+jobs:
+  dev-tag:
+    if: github.event.pull_request.merged == true
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7    
+        with:
+          enable-cache: true   
+          python-version: "3.12"          
+      - name: Bump Version
+        run: echo "PKG_VERSION=$(uv version --bump alpha | awk '{print $2}')" >> $GITHUB_ENV
+      - name: Test
+        run: echo ${{ env.PKG_VERSION }}
+      - name: Run latest-tag
+        uses: EndBug/latest-tag@latest
+        with:
+          ref: ${{ env.PKG_VERSION }}
+      - name: Push Dev Version
+        run: |
+          git config --global user.name "Dev Tagger"
+          git config --global user.email "username@users.noreply.github.com"
+          git commit -a -m "${{ env.PKG_VERSION }}"
+          git push

.github/workflows/pypi_publish.yml

@@ -1,17 +1,29 @@
 name: pypi publish
 
 on:
-    push:
-        branches:
-            - main
+  push:
+    branches:
+      - main
+  workflow_dispatch:
 
 jobs:
-    publish:
-        runs-on: ubuntu-latest
-        steps:
-            - uses: actions/checkout@v4
-              with: 
-                ref: main
-            - uses: JRubics/poetry-publish@v2.0
-              with:
-                pypi_token: ${{ secrets.PYPI_TOKEN }}
+  publish:
+    runs-on: ubuntu-latest
+    environment:
+      name: pypi
+    permissions:
+      id-token: write
+      contents: read    
+    steps:
+      - uses: actions/checkout@v4
+        with: 
+          ref: main
+      - name: Install uv and set the Python version
+        uses: astral-sh/setup-uv@v7
+        with:
+          python-version: "3.12"
+          enable-cache: true  
+      - name: Build
+        run: uv build
+      - name: Publish
+        run: uv publish       

.github/workflows/test_and_run.yml

@@ -1,53 +1,38 @@
-# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
-# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
-
-name: "Build"
+name: Python CI
 
 on:
   push:
-    branches: [ $default-branch, "workflows" ]
+    branches: [ $default-branch, "main", "dev", "workflows" ]
   pull_request:
-    branches: [ $default-branch, "dev" , "main", "feature/**"]
+    branches: [ $default-branch, "main", "dev", "feature/**", "release/**" ]
 
 defaults:
   run:
     shell: bash
-
 jobs:
   lint-and-test:
     strategy:
-      fail-fast: false
       matrix:
         python-version: ["3.10", "3.11", "3.12", "3.13"]
         os: [ubuntu-latest, windows-latest, macos-latest]
+      fail-fast: false
+
     runs-on: ${{ matrix.os }}
+
     steps:
     - uses: actions/checkout@v4
-    - name: Set up Python ${{ matrix.python-version }}
-      uses: actions/setup-python@v4
+    - name: Install uv and set the Python version
+      uses: astral-sh/setup-uv@v7
       with:
         python-version: ${{ matrix.python-version }}
-        cache: 'pip'
-    - name: Install Poetry
-      uses: snok/install-poetry@v1
-      with:
-        virtualenvs-create: true
-        virtualenvs-in-project: true
-        installer-parallel: true
-    - name: Load cached venv
-      id: cached-poetry-dependencies
-      uses: actions/cache@v3
-      with:
-        path: .venv
-        key: venv-${{ 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 --with test --no-interaction --no-root
+        enable-cache: true
+    - name: Install project
+      run: uv sync --group test
     - name: Test with pytest
-      run: |
-        source $VENV
-        pytest
+      run: uv run pytest
     - name: Upload coverage reports to Codecov
-      uses: codecov/codecov-action@v4
+      uses: codecov/codecov-action@v5
       with:
-        token: ${{ secrets.CODECOV_TOKEN }}        
+        fail_ci_if_error: false
+      env:
+        CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }}    

pyproject.toml

@@ -1,46 +1,45 @@
-[tool.poetry]
+[project]
 name = "aligned_textgrid"
+packages = [{include = "aligned_textgrid", from="src"}]
 version = "0.8.1"
 description = "Classes for defining sequential information from TextGrids"
-authors = ["JoFrhwld <JoFrhwld@gmail.com>", "chrisbrickhouse <brickhouse@stanford.edu>"]
+authors = [
+  {name="Josef Fruehwald", email = "JoFrhwld@gmail.com>"}, 
+  {name="chrisbrickhouse", email = "brickhouse@stanford.edu"}
+]
 license = "GPL-3.0-or-later"
 readme = "README.md"
-packages = [{include = "aligned_textgrid", from="src"}]
-exclude = [
-    "notebooks/",
-    "examples/",
-    "docs/"
-]
 homepage = "https://forced-alignment-and-vowel-extraction.github.io/alignedTextGrid/"
 repository = "https://github.com/Forced-Alignment-and-Vowel-Extraction/alignedTextGrid"
-
-[tool.poetry.dependencies]
-python = "^3.10"
-praatio = "^6.0.0"
-cloudpickle = "^3.0.0"
-toml = "^0.10.2"
-polars = "^1.23.0"
-numpy = "^2.1.0"
-
-[tool.poetry.group.dev.dependencies]
-jupyter = "^1.0.0"
-
-[tool.poetry.group.test.dependencies]
-pytest = "^7.2.1"
-importlib = "^1.0.4"
-pytest-cov = "^4.0.0"
-pytest-html = "^3.2.0"
-flake8 = "^6.1.0"
-codecov = "^2.1.13"
-
-[tool.poetry.group.docs.dependencies]
-textgrid = "^1.5"
-quartodoc = "0.6.5"
-jupyter = "^1.0.0"
+requires-python = ">=3.10"
+dependencies = [
+    "cloudpickle>=3.1.2",
+    "numpy>=2.2.6",
+    "polars>=1.39.3",
+    "praatio>=6.2.2",
+    "toml>=0.10.2",
+]
 
 [build-system]
-requires = ["poetry-core"]
-build-backend = "poetry.core.masonry.api"
+requires = ["uv_build>=0.10.0,<0.11.0"]
+build-backend = "uv_build"
+
+[dependency-groups]
+dev = [
+    "jupyter>=1.1.1",
+]
+docs = [
+    "jupyter>=1.1.1",
+    "quartodoc>=0.11.1",
+    "textgrid>=1.6.1",
+]
+test = [
+    "codecov>=2.1.13",
+    "importlib>=1.0.4",
+    "pytest>=9.0.2",
+    "pytest-cov>=7.1.0",
+    "pytest-html>=4.2.0",
+]
 
 [tool.pytest.ini_options]
 addopts = [