From b5b97966c7fe05425277e8745faf6fa47d2b4bcf Mon Sep 17 00:00:00 2001 From: Chadwick Boulay Date: Thu, 5 Dec 2024 08:16:55 -0700 Subject: [PATCH 1/8] Migrate to `uv` builds --- .github/workflows/release.yml | 32 +--- .github/workflows/test.yml | 27 +-- .gitignore | 7 +- pyproject.toml | 76 ++++++++ pyxdf/__init__.py | 15 -- setup.cfg | 7 - setup.py | 61 ------- src/pyxdf/__init__.py | 4 + src/pyxdf/cli/__init__.py | 0 {pyxdf => src/pyxdf}/cli/playback_lsl.py | 0 {pyxdf => src/pyxdf}/cli/print_metadata.py | 0 {pyxdf => src/pyxdf}/pyxdf.pxd | 0 {pyxdf => src/pyxdf}/pyxdf.py | 0 test/__init__.py | 0 {pyxdf/test => test}/test_data.py | 2 +- {pyxdf/test => test}/test_library_basic.py | 0 uv.lock | 203 +++++++++++++++++++++ 17 files changed, 313 insertions(+), 121 deletions(-) create mode 100644 pyproject.toml delete mode 100644 pyxdf/__init__.py delete mode 100644 setup.cfg delete mode 100644 setup.py create mode 100644 src/pyxdf/__init__.py create mode 100644 src/pyxdf/cli/__init__.py rename {pyxdf => src/pyxdf}/cli/playback_lsl.py (100%) rename {pyxdf => src/pyxdf}/cli/print_metadata.py (100%) rename {pyxdf => src/pyxdf}/pyxdf.pxd (100%) rename {pyxdf => src/pyxdf}/pyxdf.py (100%) create mode 100644 test/__init__.py rename {pyxdf/test => test}/test_data.py (99%) rename {pyxdf/test => test}/test_library_basic.py (100%) create mode 100644 uv.lock diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 5771b73..97e6013 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -17,31 +17,15 @@ jobs: build: needs: style - name: Build package + name: Build and publish package runs-on: ubuntu-22.04 steps: - uses: actions/checkout@v4 - - uses: actions/setup-python@v5 + - name: Install uv + uses: astral-sh/setup-uv@v4 with: - python-version: '3.12' - - name: Build sdist and wheel - run: | - pip install build - python -m build - - uses: actions/upload-artifact@v4 - with: - name: dist - path: dist - - upload-pypi: - name: Upload to PyPI - needs: build - runs-on: ubuntu-22.04 - permissions: - id-token: write - steps: - - uses: actions/download-artifact@v4 - with: - name: dist - path: dist - - uses: pypa/gh-action-pypi-publish@v1.9.0 + python-version: "3.12" + - name: Build Package + run: uv build + - name: Publish package distributions to PyPI + run: uv publish diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml index df2610a..acd64c4 100644 --- a/.github/workflows/test.yml +++ b/.github/workflows/test.yml @@ -1,6 +1,13 @@ name: Test -on: [push, pull_request] +on: + push: + branches: [main] + pull_request: + branches: + - main + - dev + workflow_dispatch: jobs: style: @@ -17,22 +24,20 @@ jobs: needs: style strategy: matrix: - python-version: ['3.9', '3.10', '3.11', '3.12'] + python-version: ["3.9", "3.10", "3.11", "3.12"] name: Run tests (Python ${{ matrix.python-version }}) runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 - - uses: actions/setup-python@v5 + - name: Install uv + uses: astral-sh/setup-uv@v4 with: + enable-cache: true + cache-dependency-glob: "uv.lock" python-version: ${{ matrix.python-version }} - - name: Build sdist and wheel - run: | - pip install build - python -m build - - name: Install wheel - run: pip install "$(pwd)/$(echo dist/pyxdf*.whl)[dev]" + - name: Build + run: uv sync --all-extras - name: Run tests run: | git clone https://github.com/xdf-modules/example-files.git - pip install pytest - pytest + uv run pytest diff --git a/.gitignore b/.gitignore index e168bc2..b51a57f 100644 --- a/.gitignore +++ b/.gitignore @@ -107,5 +107,8 @@ venv.bak/ .idea # cython temporaries -/pyxdf/pyxdf.c -/pyxdf/pyxdf.html +/src/pyxdf/pyxdf.c +/src/pyxdf/pyxdf.html + +# Dynamic version file +/src/pyxdf/__version__.py diff --git a/pyproject.toml b/pyproject.toml new file mode 100644 index 0000000..ff284a7 --- /dev/null +++ b/pyproject.toml @@ -0,0 +1,76 @@ +[project] +name = "pyxdf" +description = "Python library for importing XDF (Extensible Data Format)" +authors = [ + { name = "Christian Kothe", email = "christian.kothe@intheon.io" }, + { name = "Chadwick Boulay", email = "chadwick.boulay@gmail.com" }, + { name = "Clemens Brunner", email = "clemens.brunner@gmail.com" } +] +license = {file = "LICENSE"} +readme = "README.md" +requires-python = ">=3.9" +dynamic = ["version"] +keywords = [ + "XDF", + "pyxdf", + "LSL", + "Lab Streaming Layer", + "file format", + "biosignals", + "stream", +] +classifiers = [ + # How mature is this project? Common values are + # 3 - Alpha + # 4 - Beta + # 5 - Production/Stable + "Development Status :: 4 - Beta", + + # Indicate who your project is intended for + "Intended Audience :: Developers", + "Intended Audience :: Science/Research", + "Topic :: Scientific/Engineering", + + # Pick your license as you wish (see also "license" above) + "License :: OSI Approved :: BSD License", + + "Operating System :: Microsoft :: Windows", + "Operating System :: POSIX :: Linux", + "Operating System :: MacOS", + + # Specify the Python versions you support here. + "Programming Language :: Python :: 3", + "Programming Language :: Python :: 3.9", + "Programming Language :: Python :: 3.10", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", +] +dependencies = [ + "numpy>=2.0.2", +] + +[project.urls] +Repository = "https://github.com/xdf-modules/pyxdf" +Issues = "https://github.com/xdf-modules/pyxdf/issues" +Changelog = "https://github.com/xdf-modules/pyxdf/blob/main/CHANGELOG.md" + +[project.optional-dependencies] +test = [ + "pytest>=8.3.4", +] +dev = [ + "ruff>=0.8.2", +] + +[build-system] +requires = ["hatchling", "hatch-vcs"] +build-backend = "hatchling.build" + +[tool.hatch.version] +source = "vcs" + +[tool.hatch.build.hooks.vcs] +version-file = "src/pyxdf/__version__.py" + +[tool.hatch.build.targets.wheel] +packages = ["src/pyxdf"] diff --git a/pyxdf/__init__.py b/pyxdf/__init__.py deleted file mode 100644 index c046393..0000000 --- a/pyxdf/__init__.py +++ /dev/null @@ -1,15 +0,0 @@ -# Authors: Christian Kothe & the Intheon pyxdf team -# Clemens Brunner -# -# License: BSD (2-clause) - -from importlib.metadata import PackageNotFoundError, version - -try: - __version__ = version(__name__) -except PackageNotFoundError: - __version__ = None - -from .pyxdf import load_xdf, match_streaminfos, resolve_streams - -__all__ = [load_xdf, resolve_streams, match_streaminfos] diff --git a/setup.cfg b/setup.cfg deleted file mode 100644 index 0046ed3..0000000 --- a/setup.cfg +++ /dev/null @@ -1,7 +0,0 @@ -[metadata] -# includes the license file in the wheel -license_files = LICENSE - -[bdist_wheel] -# our code is written to work on both Python 2 and 3 -universal=1 diff --git a/setup.py b/setup.py deleted file mode 100644 index bd04819..0000000 --- a/setup.py +++ /dev/null @@ -1,61 +0,0 @@ -# Authors: Christian Kothe & the Intheon pyxdf team -# Chadwick Boulay -# Clemens Brunner -# -# License: BSD (2-clause) - -"""Python setup script for the pyxdf distribution package.""" - -from setuptools import setup, find_packages -from codecs import open -from os import path - - -here = path.abspath(path.dirname(__file__)) - -# Get the long description from the relevant file -with open(path.join(here, "README.md"), encoding="utf-8") as f: - long_description = f.read() - -setup( - name="pyxdf", - use_scm_version=True, - setup_requires=["setuptools_scm"], - description="Python library for importing XDF (Extensible Data Format)", - long_description=long_description, - long_description_content_type="text/markdown", - url="https://github.com/xdf-modules/xdf-Python", - author="Christian Kothe", - author_email="christian.kothe@intheon.io", - license="BSD", - classifiers=[ - "Development Status :: 4 - Beta", - "Intended Audience :: Developers", - "Intended Audience :: Science/Research", - "Topic :: Scientific/Engineering", - "License :: OSI Approved :: BSD License", - "Operating System :: Microsoft :: Windows", - "Operating System :: POSIX :: Linux", - "Operating System :: MacOS", - "Programming Language :: Python :: 3", - "Programming Language :: Python :: 3.9", - "Programming Language :: Python :: 3.10", - "Programming Language :: Python :: 3.11", - "Programming Language :: Python :: 3.12", - ], - keywords=[ - "XDF", - "pyxdf", - "LSL", - "Lab Streaming Layer", - "file format", - "biosignals", - "stream", - ], - packages=find_packages(exclude=["pyxdf.test*"]), - install_requires=["numpy"], - extras_require={}, - package_data={}, - data_files=[], - entry_points={}, -) diff --git a/src/pyxdf/__init__.py b/src/pyxdf/__init__.py new file mode 100644 index 0000000..469531e --- /dev/null +++ b/src/pyxdf/__init__.py @@ -0,0 +1,4 @@ +from .__version__ import __version__ as __version__ +from .pyxdf import (load_xdf, match_streaminfos, resolve_streams) + +__all__ = [load_xdf, resolve_streams, match_streaminfos] diff --git a/src/pyxdf/cli/__init__.py b/src/pyxdf/cli/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pyxdf/cli/playback_lsl.py b/src/pyxdf/cli/playback_lsl.py similarity index 100% rename from pyxdf/cli/playback_lsl.py rename to src/pyxdf/cli/playback_lsl.py diff --git a/pyxdf/cli/print_metadata.py b/src/pyxdf/cli/print_metadata.py similarity index 100% rename from pyxdf/cli/print_metadata.py rename to src/pyxdf/cli/print_metadata.py diff --git a/pyxdf/pyxdf.pxd b/src/pyxdf/pyxdf.pxd similarity index 100% rename from pyxdf/pyxdf.pxd rename to src/pyxdf/pyxdf.pxd diff --git a/pyxdf/pyxdf.py b/src/pyxdf/pyxdf.py similarity index 100% rename from pyxdf/pyxdf.py rename to src/pyxdf/pyxdf.py diff --git a/test/__init__.py b/test/__init__.py new file mode 100644 index 0000000..e69de29 diff --git a/pyxdf/test/test_data.py b/test/test_data.py similarity index 99% rename from pyxdf/test/test_data.py rename to test/test_data.py index 74c87f5..aabf2a2 100644 --- a/pyxdf/test/test_data.py +++ b/test/test_data.py @@ -6,7 +6,7 @@ from pyxdf import load_xdf # requires git clone https://github.com/xdf-modules/example-files.git -# into the root xdf-python folder +# into the root pyxdf folder path = Path("example-files") extensions = ["*.xdf", "*.xdfz", "*.xdf.gz"] files = [] diff --git a/pyxdf/test/test_library_basic.py b/test/test_library_basic.py similarity index 100% rename from pyxdf/test/test_library_basic.py rename to test/test_library_basic.py diff --git a/uv.lock b/uv.lock new file mode 100644 index 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insertion(+), 1 deletion(-) diff --git a/src/pyxdf/__init__.py b/src/pyxdf/__init__.py index 469531e..75f62cb 100644 --- a/src/pyxdf/__init__.py +++ b/src/pyxdf/__init__.py @@ -1,4 +1,4 @@ from .__version__ import __version__ as __version__ -from .pyxdf import (load_xdf, match_streaminfos, resolve_streams) +from .pyxdf import load_xdf, match_streaminfos, resolve_streams __all__ = [load_xdf, resolve_streams, match_streaminfos] From ac25a6ef741e8efa0bfa597a176e4445cd3412b7 Mon Sep 17 00:00:00 2001 From: Chadwick Boulay Date: Fri, 6 Dec 2024 06:28:18 -0700 Subject: [PATCH 4/8] Address @cbrnr PR review. --- .github/workflows/release.yml | 2 +- .github/workflows/test.yml | 1 - pyproject.toml | 13 ++----------- src/pyxdf/__init__.py | 2 +- test/__init__.py | 0 uv.lock | 10 +++++++++- 6 files changed, 13 insertions(+), 15 deletions(-) delete mode 100644 test/__init__.py diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 97e6013..1e38776 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -18,7 +18,7 @@ jobs: build: needs: style name: Build and publish package - runs-on: ubuntu-22.04 + runs-on: ubuntu-24.04 steps: - uses: actions/checkout@v4 - name: Install uv diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml index acd64c4..e8f65d6 100644 --- a/.github/workflows/test.yml +++ b/.github/workflows/test.yml @@ -6,7 +6,6 @@ on: pull_request: branches: - main - - dev workflow_dispatch: jobs: diff --git a/pyproject.toml b/pyproject.toml index ff284a7..aabeb38 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -20,25 +20,14 @@ keywords = [ "stream", ] classifiers = [ - # How mature is this project? Common values are - # 3 - Alpha - # 4 - Beta - # 5 - Production/Stable "Development Status :: 4 - Beta", - - # Indicate who your project is intended for "Intended Audience :: Developers", "Intended Audience :: Science/Research", "Topic :: Scientific/Engineering", - - # Pick your license as you wish (see also "license" above) "License :: OSI Approved :: BSD License", - "Operating System :: Microsoft :: Windows", "Operating System :: POSIX :: Linux", "Operating System :: MacOS", - - # Specify the Python versions you support here. "Programming Language :: Python :: 3", "Programming Language :: Python :: 3.9", "Programming Language :: Python :: 3.10", @@ -58,6 +47,8 @@ Changelog = "https://github.com/xdf-modules/pyxdf/blob/main/CHANGELOG.md" test = [ "pytest>=8.3.4", ] + +[dependency-groups] dev = [ "ruff>=0.8.2", ] diff --git a/src/pyxdf/__init__.py b/src/pyxdf/__init__.py index 75f62cb..cbb9ff5 100644 --- a/src/pyxdf/__init__.py +++ b/src/pyxdf/__init__.py @@ -1,4 +1,4 @@ from .__version__ import __version__ as __version__ from .pyxdf import load_xdf, match_streaminfos, resolve_streams -__all__ = [load_xdf, resolve_streams, match_streaminfos] +__all__ = ["load_xdf", "resolve_streams", "match_streaminfos"] diff --git a/test/__init__.py b/test/__init__.py deleted file mode 100644 index e69de29..0000000 diff --git a/uv.lock b/uv.lock index 72e14be..6ab5d70 100644 --- a/uv.lock +++ b/uv.lock @@ -117,7 +117,7 @@ wheels = [ [[package]] name = "pyxdf" -version = "1.16.9.dev16+g0df1599.d20241205" +version = "1.16.9.dev19+gf6b0619.d20241206" source = { editable = "." } dependencies = [ { name = "numpy" }, @@ -131,6 +131,11 @@ test = [ { name = "pytest" }, ] +[package.dev-dependencies] +dev = [ + { name = "ruff" }, +] + [package.metadata] requires-dist = [ { name = "numpy", specifier = ">=2.0.2" }, @@ -138,6 +143,9 @@ requires-dist = [ { name = "ruff", marker = "extra == 'dev'", specifier = ">=0.8.2" }, ] +[package.metadata.requires-dev] +dev = [{ name = "ruff", specifier = ">=0.8.2" }] + [[package]] name = "ruff" version = "0.8.2" From f2b36850a19f807b69e69349badcad05548e134e Mon Sep 17 00:00:00 2001 From: Chadwick Boulay Date: Fri, 6 Dec 2024 06:32:43 -0700 Subject: [PATCH 5/8] Put pytest and ruff into single group. --- pyproject.toml | 6 +----- uv.lock | 22 +++++++--------------- 2 files changed, 8 insertions(+), 20 deletions(-) diff --git a/pyproject.toml b/pyproject.toml index aabeb38..86f94d5 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -43,13 +43,9 @@ Repository = "https://github.com/xdf-modules/pyxdf" Issues = "https://github.com/xdf-modules/pyxdf/issues" Changelog = "https://github.com/xdf-modules/pyxdf/blob/main/CHANGELOG.md" -[project.optional-dependencies] -test = [ - 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