Updated for rebrand

.github/workflows/docs.yml

@@ -16,12 +16,22 @@ jobs:
 
       - name: Install font
         run: |
-          cd /usr/share/fonts
-          wget https://github.com/JulietaUla/Montserrat/archive/refs/tags/v7.222.tar.gz
-          tar -xvzf v7.222.tar.gz
-          sudo chmod -R --reference=/usr/share/fonts/truetype Montserrat-7.222
+          # ---- Install Host Grotesk (v1.002) ----
+          # prerequisites (unzip isn’t needed if you keep using tar)
+          sudo apt-get update -y
+          sudo apt-get install -y wget tar
+          # 1) create a spot for the family
+          sudo mkdir -p /usr/share/fonts/truetype/hostgrotesk
+          cd /usr/share/fonts/truetype/hostgrotesk
+          # 2) download the latest release tarball
+          #    -> https://github.com/Element-Type/HostGrotesk/releases/tag/1.002
+          wget -q https://github.com/Element-Type/HostGrotesk/archive/refs/tags/1.002.tar.gz
+          # 3) extract only the TTFs; strip the first two path components
+          tar --wildcards --strip-components=2 -xzf 1.002.tar.gz "*/fonts/ttf/*.ttf"
+          # 4) match permissions to other truetype fonts
+          sudo chmod -R --reference=/usr/share/fonts/truetype/dejavu .
+          # 5) refresh the cache & verify
           sudo fc-cache -fv
-          fc-match Montserrat
-
+          fc-match "Host Grotesk"
       - run: pip install ".[docs]"
       - run: mkdocs gh-deploy --force

.github/workflows/publish.yml

@@ -1,7 +1,4 @@
-# This workflows will upload a Python Package using Twine when a release is created
-# For more information see: https://help.github.com/en/actions/language-and-framework-guides/using-python-with-github-actions#publishing-to-package-registries
-
-name: PyPI
+name: Publish to PyPI
 
 on:
   release:
@@ -10,21 +7,24 @@ on:
 jobs:
   deploy:
     runs-on: ubuntu-latest
-
+    environment: pypi
+    permissions:
+      id-token: write
     steps:
-    - uses: actions/checkout@v2
-    - name: Set up Python
-      uses: actions/setup-python@v2
+    - name: Checkout project
+      uses: actions/checkout@v4
+
+    - name: Install uv
+      uses: astral-sh/setup-uv@v5
+
+    - name: Setup Python
+      uses: actions/setup-python@v5
       with:
-        python-version: '3.x'
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install setuptools wheel twine build
-    - name: Build and publish
-      env:
-        TWINE_USERNAME: ${{ secrets.PYPI_USERNAME }}
-        TWINE_PASSWORD: ${{ secrets.PYPI_PASSWORD }}
+        python-version-file: pyproject.toml
+
+    - name: Build
       run: |
-        python -m build --sdist --wheel .
-        twine upload dist/*
+        uv build
+
+    - name: Publish to PyPI
+      uses: pypa/gh-action-pypi-publish@release/v1

.github/workflows/tests.yml

@@ -1,39 +1,39 @@
-name: tests
+name: Lint and Test
 
 on:
   push:
-    branches: [ main ]
+    branches: [main]
   pull_request:
-    branches: [ main ]
+    branches: [main]
 
 jobs:
-  build:
-    runs-on: ${{ matrix.os }}
-    strategy:
-      matrix:
-        os: [ubuntu-latest, windows-latest, macos-latest]
-
+  lint:
+    runs-on: ubuntu-latest
     steps:
-    - uses: actions/checkout@v3
-    - name: Set up Python 3.8
-      uses: actions/setup-python@v4
+    - uses: actions/checkout@v4
+
+    - name: Set up Python
+      uses: actions/setup-python@v5
       with:
-        python-version: "3.8"
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install flake8 pytest pytest-cov wheel
-        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
-    - name: Run unit and system tests
-      run: |
-        pytest --cov=vizta tests/
-    - name: Upload coverage to codecov
-      uses: codecov/codecov-action@v3
+        python-version-file: pyproject.toml
+
+    - uses: pre-commit/action@v3.0.1
       with:
-        fail_ci_if_error: true
+        extra_args: --all-files
+
+  test:
+    runs-on: ubuntu-latest
+    steps:
+    - name: Checkout project
+      uses: actions/checkout@v4
+
+    - name: Install uv
+      uses: astral-sh/setup-uv@v5
+
+    - name: Setup Python
+      uses: actions/setup-python@v5
+      with:
+        python-version-file: pyproject.toml
+
+    - name: Run tests
+      run: uv run pytest tests

.pre-commit-config.yaml

@@ -1,6 +1,19 @@
 repos:
-  - repo: https://github.com/psf/black
-    rev: 22.10.0 # Replace by any tag/version: https://github.com/psf/black/tags
-    hooks:
-      - id: black
-        language_version: python3 # Should be a command that runs python3.6+
+- repo: https://github.com/pre-commit/pre-commit-hooks
+  rev: v5.0.0
+  hooks:
+  - id: check-toml
+  - id: check-yaml
+  - id: end-of-file-fixer
+  - id: trailing-whitespace
+  - id: detect-private-key
+- repo: https://github.com/astral-sh/ruff-pre-commit
+  rev: v0.12.0
+  hooks:
+    # Run the linter.
+    - id: ruff
+      types_or: [ python, pyi, jupyter ]
+      args: [ --fix, --show-fixes ]
+    # Run the formatter.
+    - id: ruff-format
+      types_or: [ python, pyi, jupyter ]

CHANGELOG.md

@@ -2,6 +2,13 @@
 
 ## [unreleased]
 
+## [1.0.0] 2025-06-21
+### Changed
+- Updated for rebranding
+
+### Fixed
+- Compatibility with newer versions of Seaborn
+
 ## [0.0.1] 2022-11-08
 ### Added
 - The first release! :tada:

CODE_OF_CONDUCT.md

@@ -120,4 +120,3 @@ version 2.0, available at
 
 [homepage]: https://www.contributor-covenant.org
 [v2.0]: https://www.contributor-covenant.org/version/2/0/code_of_conduct.html
-

CONTRIBUTING.md

@@ -19,7 +19,7 @@ There are three exceptions to this:
 
 2. The Vignettes are created from Jupyter notebooks.
 
-3. The Code of Conduct, Release Notes, and this Contributing document are 
+3. The Code of Conduct, Release Notes, and this Contributing document are
    markdown files that live in the root of the vizta repository.
 
 ### Editing most documents
@@ -39,7 +39,7 @@ way.
 
 ## Contributing to the code
 
-We welcome contributions to the source code of vizta---particularly 
+We welcome contributions to the source code of vizta---particularly
 ones that address discussed [issues](https://github.com/TalusBio/vizta/issues).
 
 Contributions to vizta follow a standard GitHub contribution workflow:

docs/api.md

@@ -1,4 +1,3 @@
 # API reference
 
 ::: vizta.mpl.set_theme
-

pyproject.toml

@@ -11,9 +11,8 @@ classifiers = [
     "Programming Language :: Python :: 3",
     "License :: OSI Approved :: Apache Software License",
     "Operating System :: OS Independent",
-    "Topic :: Scientific/Engineering :: Bio-Informatics",
 ]
-requires-python = ">=3.6"
+requires-python = ">=3.12"
 dependencies = [
     "matplotlib>=3.5.1",
     "seaborn>=0.11.2",
@@ -30,19 +29,6 @@ Documentation = "https://TalusBio.github.io/vizta"
 "Bug Tracker" = "https://github.com/TalusBio/vizta/issues"
 "Discussion Board" = "https://github.com/TalusBio/vizta/discussions"
 
-[project.optional-dependencies]
-docs = [
-    "mkdocs>=1.3.0",
-    "mkdocstrings[python]>=0.18.1",
-    "mkdocs-material>=8.2.1",
-    "mkdocs-jupyter>=0.20.1",
-    "ipykernel>=6.12.1",
-]
-dev = [
-    "pre-commit>=2.7.1",
-    "black>=19.10b0",
-]
-
 [tool.setuptools]
 include-package-data = false
 
@@ -53,24 +39,16 @@ find = {namespaces = false}
 
 [tool.black]
 line-length = 79
-target-version = ['py37']
-include = '\.pyi?$'
-exclude = '''
+target-version = ['py312']
 
-(
-  /(
-      \.eggs         # exclude a few common directories in the
-    | \.git          # root of the project
-    | \.hg
-    | \.mypy_cache
-    | \.tox
-    | \.venv
-    | _build
-    | buck-out
-    | build
-    | dist
-  )/
-  | foo.py           # also separately exclude a file named foo.py in
-                     # the root of the project
-)
-'''
+[dependency-groups]
+dev = [
+    "pytest>=8.4.1",
+]
+docs = [
+    "mkdocs>=1.3.0",
+    "mkdocstrings[python]>=0.18.1",
+    "mkdocs-material>=8.2.1",
+    "mkdocs-jupyter>=0.20.1",
+    "ipykernel>=6.12.1",
+]

tests/unit_tests/test_mpl_themes.py

@@ -1,4 +1,5 @@
 """Test matplotlib themes"""
+
 import pytest
 import vizta
 

tests/unit_tests/test_palettes.py

@@ -3,17 +3,17 @@
 
 def test_vizta_first():
     """Test when importing vizta before seaborn"""
-    import vizta
+    import vizta  # noqa: F401
     import seaborn as sns
 
     sns.color_palette("talusbio")
     sns.color_palette("wfondrie")
 
 
-def test_vizta_first():
-    """Test when importing vizta before seaborn"""
+def test_vizta_second():
+    """Test when importing vizta after seaborn"""
     import seaborn as sns
-    import vizta
+    import vizta  # noqa: F401
 
     sns.color_palette("talusbio")
     sns.color_palette("wfondrie")

tests/unit_tests/test_version.py

@@ -1,4 +1,5 @@
 """Test that setuptools-scm is working correctly"""
+
 import vizta