From d07006401f81e71bb20fa228dfc8f94be4abac0b Mon Sep 17 00:00:00 2001 From: Remco de Boer <29308176+redeboer@users.noreply.github.com> Date: Fri, 18 Oct 2024 15:15:35 +0200 Subject: [PATCH] DX: define developer environment with `uv` (#142) Co-authored-by: GitHub Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> --- .binder/apt.txt | 1 + .binder/postBuild | 12 + .binder/runtime.txt | 1 + .constraints/.gitignore | 1 - .constraints/py3.10.txt | 238 - .constraints/py3.11.txt | 237 - .constraints/py3.12.txt | 235 - .constraints/py3.9.txt | 239 - .cspell.json | 5 +- .editorconfig | 3 + .envrc | 12 +- .gitattributes | 1 - .github/workflows/cd.yml | 10 +- .github/workflows/ci.yml | 6 +- .github/workflows/clean-caches.yml | 4 +- .../workflows/{requirements.yml => lock.yml} | 10 +- .github/workflows/pr-linting.yml | 2 +- .github/workflows/release-drafter.yml | 2 +- .gitignore | 2 - .pre-commit-config.yaml | 24 +- .python-version | 1 + .readthedocs.yml | 29 +- .vscode/settings.json | 7 +- README.md | 1 + docs/conf.py | 6 +- docs/index.md | 2 +- environment.yml | 11 - pyproject.toml | 256 +- tox.ini | 179 - uv.lock | 4761 +++++++++++++++++ 30 files changed, 4969 insertions(+), 1329 deletions(-) create mode 100644 .binder/apt.txt create mode 100755 .binder/postBuild create mode 100644 .binder/runtime.txt delete mode 100644 .constraints/.gitignore delete mode 100644 .constraints/py3.10.txt delete mode 100644 .constraints/py3.11.txt delete mode 100644 .constraints/py3.12.txt delete mode 100644 .constraints/py3.9.txt delete mode 100644 .gitattributes rename .github/workflows/{requirements.yml => lock.yml} (68%) create mode 100644 .python-version delete mode 100644 environment.yml delete mode 100644 tox.ini create mode 100644 uv.lock diff --git a/.binder/apt.txt b/.binder/apt.txt new file mode 100644 index 00000000..4d956093 --- /dev/null +++ b/.binder/apt.txt @@ -0,0 +1 @@ +graphviz diff --git a/.binder/postBuild b/.binder/postBuild new file mode 100755 index 00000000..71195648 --- /dev/null +++ b/.binder/postBuild @@ -0,0 +1,12 @@ +#!/bin/bash +set -ex +curl -LsSf https://astral.sh/uv/install.sh | sh +source $HOME/.cargo/env +uv export \ + --extra jupyter \ + --extra notebooks \ + > requirements.txt +uv pip install \ + --requirement requirements.txt \ + --system +uv cache clean diff --git a/.binder/runtime.txt b/.binder/runtime.txt new file mode 100644 index 00000000..d2aca3a7 --- /dev/null +++ b/.binder/runtime.txt @@ -0,0 +1 @@ +python-3.12 diff --git a/.constraints/.gitignore b/.constraints/.gitignore deleted file mode 100644 index 36a07ad0..00000000 --- a/.constraints/.gitignore +++ /dev/null @@ -1 +0,0 @@ -!py3.*.txt diff --git a/.constraints/py3.10.txt b/.constraints/py3.10.txt deleted file mode 100644 index 96ec38cf..00000000 --- a/.constraints/py3.10.txt +++ /dev/null @@ -1,238 +0,0 @@ -# This file was autogenerated by uv via the following command: -# uv pip compile pyproject.toml -o .constraints/py3.10.txt --all-extras --no-annotate --python-version=3.10 --no-emit-package setuptools -absl-py==2.1.0 -accessible-pygments==0.0.5 -alabaster==1.0.0 -ampform==0.15.4 -anyio==4.4.0 -argon2-cffi==23.1.0 -argon2-cffi-bindings==21.2.0 -arrow==1.3.0 -asttokens==2.4.1 -astunparse==1.6.3 -async-lru==2.0.4 -attrs==24.2.0 -babel==2.16.0 -beautifulsoup4==4.12.3 -bleach==6.1.0 -cachetools==5.5.0 -cattrs==24.1.0 -certifi==2024.8.30 -cffi==1.17.1 -cfgv==3.4.0 -chardet==5.2.0 -charset-normalizer==3.3.2 -click==8.1.7 -cloudpickle==3.0.0 -colorama==0.4.6 -comm==0.2.2 -contourpy==1.3.0 -coverage==7.6.1 -cycler==0.12.1 -debugpy==1.8.5 -decorator==5.1.1 -defusedxml==0.7.1 -distlib==0.3.8 -dm-tree==0.1.8 -docstring-to-markdown==0.15 -docutils==0.21.2 -exceptiongroup==1.2.2 -execnet==2.1.1 -executing==2.1.0 -fastjsonschema==2.20.0 -filelock==3.16.0 -flatbuffers==24.3.25 -fonttools==4.53.1 -fqdn==1.5.1 -gast==0.6.0 -gitdb==4.0.11 -gitpython==3.1.43 -google-pasta==0.2.0 -graphviz==0.20.3 -greenlet==3.1.0 -grpcio==1.66.1 -h11==0.14.0 -h5py==3.11.0 -hepunits==2.3.4 -httpcore==1.0.5 -httpx==0.27.2 -identify==2.6.0 -idna==3.8 -imagesize==1.4.1 -iminuit==2.29.1 -importlib-metadata==8.4.0 -iniconfig==2.0.0 -ipykernel==6.29.5 -ipympl==0.9.4 -ipython==8.27.0 -ipython-genutils==0.2.0 -ipywidgets==8.1.5 -isoduration==20.11.0 -jax==0.4.31 -jaxlib==0.4.31 -jedi==0.19.1 -jinja2==3.1.4 -json5==0.9.25 -jsonpointer==3.0.0 -jsonschema==4.23.0 -jsonschema-specifications==2023.12.1 -jupyter-cache==1.0.0 -jupyter-client==8.6.2 -jupyter-core==5.7.2 -jupyter-events==0.10.0 -jupyter-lsp==2.2.5 -jupyter-server==2.14.2 -jupyter-server-mathjax==0.2.6 -jupyter-server-terminals==0.5.3 -jupyterlab==4.2.5 -jupyterlab-code-formatter==3.0.2 -jupyterlab-git==0.50.1 -jupyterlab-lsp==5.1.0 -jupyterlab-myst==2.4.2 -jupyterlab-pygments==0.3.0 -jupyterlab-server==2.27.3 -jupyterlab-widgets==3.0.13 -keras==3.5.0 -kiwisolver==1.4.7 -latexcodec==3.0.0 -libclang==18.1.1 -llvmlite==0.43.0 -lsprotocol==2023.0.1 -markdown==3.7 -markdown-it-py==3.0.0 -markupsafe==2.1.5 -matplotlib==3.9.2 -matplotlib-inline==0.1.7 -mdit-py-plugins==0.4.2 -mdurl==0.1.2 -mistune==3.0.2 -ml-dtypes==0.4.0 -mpmath==1.3.0 -mypy==1.11.2 -mypy-extensions==1.0.0 -myst-nb==1.1.1 -myst-parser==4.0.0 -namex==0.0.8 -nbclient==0.6.8 -nbconvert==7.16.4 -nbdime==4.0.2 -nbformat==5.10.4 -nbmake==1.5.4 -nest-asyncio==1.6.0 -nodeenv==1.9.1 -notebook-shim==0.2.4 -numba==0.60.0 -numpy==1.26.4 -opt-einsum==3.3.0 -optree==0.12.1 -overrides==7.7.0 -packaging==24.1 -pandas==2.2.2 -pandocfilters==1.5.1 -parso==0.8.4 -particle==0.25.0 -pexpect==4.9.0 -phasespace==1.10.3 -pillow==10.4.0 -platformdirs==4.3.2 -pluggy==1.5.0 -pre-commit==3.8.0 -prometheus-client==0.20.0 -prompt-toolkit==3.0.47 -protobuf==4.25.4 -psutil==6.0.0 -ptyprocess==0.7.0 -pure-eval==0.2.3 -pybtex==0.24.0 -pybtex-docutils==1.0.3 -pycparser==2.22 -pydata-sphinx-theme==0.15.4 -pygments==2.18.0 -pyparsing==3.1.4 -pyproject-api==1.7.1 -pytest==8.3.3 -pytest-cov==5.0.0 -pytest-xdist==3.6.1 -python-constraint2==2.0.0b5 -python-dateutil==2.9.0.post0 -python-json-logger==2.0.7 -python-lsp-jsonrpc==1.1.2 -python-lsp-ruff==2.2.2 -python-lsp-server==1.12.0 -pytoolconfig==1.3.1 -pytz==2024.1 -pyyaml==6.0.2 -pyzmq==26.2.0 -qrules==0.10.2 -referencing==0.35.1 -requests==2.32.3 -rfc3339-validator==0.1.4 -rfc3986-validator==0.1.1 -rich==13.8.1 -rope==1.13.0 -rpds-py==0.20.0 -ruff==0.6.4 -scipy==1.14.1 -send2trash==1.8.3 -six==1.16.0 -smmap==5.0.1 -sniffio==1.3.1 -snowballstemmer==2.2.0 -soupsieve==2.6 -sphinx==8.0.2 -sphinx-api-relink==0.0.9 -sphinx-autobuild==2024.9.3 -sphinx-book-theme==1.1.3 -sphinx-codeautolink==0.15.2 -sphinx-copybutton==0.5.2 -sphinx-design==0.6.1 -sphinx-pybtex-etal-style==0.0.2 -sphinx-togglebutton==0.3.2 -sphinxcontrib-applehelp==2.0.0 -sphinxcontrib-bibtex==2.6.2 -sphinxcontrib-devhelp==2.0.0 -sphinxcontrib-htmlhelp==2.1.0 -sphinxcontrib-jsmath==1.0.1 -sphinxcontrib-qthelp==2.0.0 -sphinxcontrib-serializinghtml==2.0.0 -sqlalchemy==2.0.34 -stack-data==0.6.3 -starlette==0.38.5 -sympy==1.13.2 -tabulate==0.9.0 -tensorboard==2.17.1 -tensorboard-data-server==0.7.2 -tensorflow==2.17.0 -tensorflow-io-gcs-filesystem==0.37.1 -tensorflow-probability==0.24.0 -tensorwaves==0.4.12 -termcolor==2.4.0 -terminado==0.18.1 -tinycss2==1.3.0 -tomli==2.0.1 -tornado==6.4.1 -tox==4.18.1 -tqdm==4.66.5 -traitlets==5.14.3 -types-python-dateutil==2.9.0.20240906 -typing-extensions==4.12.2 -tzdata==2024.1 -ujson==5.10.0 -uri-template==1.3.0 -urllib3==2.2.2 -uvicorn==0.30.6 -virtualenv==20.26.4 -watchfiles==0.24.0 -wcwidth==0.2.13 -webcolors==24.8.0 -webencodings==0.5.1 -websocket-client==1.8.0 -websockets==13.0.1 -werkzeug==3.0.4 -wheel==0.44.0 -widgetsnbextension==4.0.13 -wrapt==1.16.0 -zipp==3.20.1 - -# The following packages were excluded from the output: -# setuptools diff --git a/.constraints/py3.11.txt b/.constraints/py3.11.txt deleted file mode 100644 index bfde1b7d..00000000 --- a/.constraints/py3.11.txt +++ /dev/null @@ -1,237 +0,0 @@ -# This file was autogenerated by uv via the following command: -# uv pip compile pyproject.toml -o .constraints/py3.11.txt --all-extras --no-annotate --python-version=3.11 --no-emit-package setuptools -absl-py==2.1.0 -accessible-pygments==0.0.5 -alabaster==1.0.0 -ampform==0.15.4 -anyio==4.4.0 -argon2-cffi==23.1.0 -argon2-cffi-bindings==21.2.0 -arrow==1.3.0 -asttokens==2.4.1 -astunparse==1.6.3 -async-lru==2.0.4 -attrs==24.2.0 -babel==2.16.0 -beautifulsoup4==4.12.3 -bleach==6.1.0 -cachetools==5.5.0 -cattrs==24.1.0 -certifi==2024.8.30 -cffi==1.17.1 -cfgv==3.4.0 -chardet==5.2.0 -charset-normalizer==3.3.2 -click==8.1.7 -cloudpickle==3.0.0 -colorama==0.4.6 -comm==0.2.2 -contourpy==1.3.0 -coverage==7.6.1 -cycler==0.12.1 -debugpy==1.8.5 -decorator==5.1.1 -defusedxml==0.7.1 -distlib==0.3.8 -dm-tree==0.1.8 -docstring-to-markdown==0.15 -docutils==0.21.2 -execnet==2.1.1 -executing==2.1.0 -fastjsonschema==2.20.0 -filelock==3.16.0 -flatbuffers==24.3.25 -fonttools==4.53.1 -fqdn==1.5.1 -gast==0.6.0 -gitdb==4.0.11 -gitpython==3.1.43 -google-pasta==0.2.0 -graphviz==0.20.3 -greenlet==3.1.0 -grpcio==1.66.1 -h11==0.14.0 -h5py==3.11.0 -hepunits==2.3.4 -httpcore==1.0.5 -httpx==0.27.2 -identify==2.6.0 -idna==3.8 -imagesize==1.4.1 -iminuit==2.29.1 -importlib-metadata==8.4.0 -iniconfig==2.0.0 -ipykernel==6.29.5 -ipympl==0.9.4 -ipython==8.27.0 -ipython-genutils==0.2.0 -ipywidgets==8.1.5 -isoduration==20.11.0 -jax==0.4.31 -jaxlib==0.4.31 -jedi==0.19.1 -jinja2==3.1.4 -json5==0.9.25 -jsonpointer==3.0.0 -jsonschema==4.23.0 -jsonschema-specifications==2023.12.1 -jupyter-cache==1.0.0 -jupyter-client==8.6.2 -jupyter-core==5.7.2 -jupyter-events==0.10.0 -jupyter-lsp==2.2.5 -jupyter-server==2.14.2 -jupyter-server-mathjax==0.2.6 -jupyter-server-terminals==0.5.3 -jupyterlab==4.2.5 -jupyterlab-code-formatter==3.0.2 -jupyterlab-git==0.50.1 -jupyterlab-lsp==5.1.0 -jupyterlab-myst==2.4.2 -jupyterlab-pygments==0.3.0 -jupyterlab-server==2.27.3 -jupyterlab-widgets==3.0.13 -keras==3.5.0 -kiwisolver==1.4.7 -latexcodec==3.0.0 -libclang==18.1.1 -llvmlite==0.43.0 -lsprotocol==2023.0.1 -markdown==3.7 -markdown-it-py==3.0.0 -markupsafe==2.1.5 -matplotlib==3.9.2 -matplotlib-inline==0.1.7 -mdit-py-plugins==0.4.2 -mdurl==0.1.2 -mistune==3.0.2 -ml-dtypes==0.4.0 -mpmath==1.3.0 -mypy==1.11.2 -mypy-extensions==1.0.0 -myst-nb==1.1.1 -myst-parser==4.0.0 -namex==0.0.8 -nbclient==0.6.8 -nbconvert==7.16.4 -nbdime==4.0.2 -nbformat==5.10.4 -nbmake==1.5.4 -nest-asyncio==1.6.0 -nodeenv==1.9.1 -notebook-shim==0.2.4 -numba==0.60.0 -numpy==1.26.4 -opt-einsum==3.3.0 -optree==0.12.1 -overrides==7.7.0 -packaging==24.1 -pandas==2.2.2 -pandocfilters==1.5.1 -parso==0.8.4 -particle==0.25.0 -pexpect==4.9.0 -phasespace==1.10.3 -pillow==10.4.0 -platformdirs==4.3.2 -pluggy==1.5.0 -pre-commit==3.8.0 -prometheus-client==0.20.0 -prompt-toolkit==3.0.47 -protobuf==4.25.4 -psutil==6.0.0 -ptyprocess==0.7.0 -pure-eval==0.2.3 -pybtex==0.24.0 -pybtex-docutils==1.0.3 -pycparser==2.22 -pydata-sphinx-theme==0.15.4 -pygments==2.18.0 -pyparsing==3.1.4 -pyproject-api==1.7.1 -pytest==8.3.3 -pytest-cov==5.0.0 -pytest-xdist==3.6.1 -python-constraint2==2.0.0b5 -python-dateutil==2.9.0.post0 -python-json-logger==2.0.7 -python-lsp-jsonrpc==1.1.2 -python-lsp-ruff==2.2.2 -python-lsp-server==1.12.0 -pytoolconfig==1.3.1 -pytz==2024.1 -pyyaml==6.0.2 -pyzmq==26.2.0 -qrules==0.10.2 -referencing==0.35.1 -requests==2.32.3 -rfc3339-validator==0.1.4 -rfc3986-validator==0.1.1 -rich==13.8.1 -rope==1.13.0 -rpds-py==0.20.0 -ruff==0.6.4 -scipy==1.14.1 -send2trash==1.8.3 -six==1.16.0 -smmap==5.0.1 -sniffio==1.3.1 -snowballstemmer==2.2.0 -soupsieve==2.6 -sphinx==8.0.2 -sphinx-api-relink==0.0.9 -sphinx-autobuild==2024.9.3 -sphinx-book-theme==1.1.3 -sphinx-codeautolink==0.15.2 -sphinx-copybutton==0.5.2 -sphinx-design==0.6.1 -sphinx-pybtex-etal-style==0.0.2 -sphinx-togglebutton==0.3.2 -sphinxcontrib-applehelp==2.0.0 -sphinxcontrib-bibtex==2.6.2 -sphinxcontrib-devhelp==2.0.0 -sphinxcontrib-htmlhelp==2.1.0 -sphinxcontrib-jsmath==1.0.1 -sphinxcontrib-qthelp==2.0.0 -sphinxcontrib-serializinghtml==2.0.0 -sqlalchemy==2.0.34 -stack-data==0.6.3 -starlette==0.38.5 -sympy==1.13.2 -tabulate==0.9.0 -tensorboard==2.17.1 -tensorboard-data-server==0.7.2 -tensorflow==2.17.0 -tensorflow-io-gcs-filesystem==0.37.1 -tensorflow-probability==0.24.0 -tensorwaves==0.4.12 -termcolor==2.4.0 -terminado==0.18.1 -tinycss2==1.3.0 -tomli==2.0.1 -tornado==6.4.1 -tox==4.18.1 -tqdm==4.66.5 -traitlets==5.14.3 -types-python-dateutil==2.9.0.20240906 -typing-extensions==4.12.2 -tzdata==2024.1 -ujson==5.10.0 -uri-template==1.3.0 -urllib3==2.2.2 -uvicorn==0.30.6 -virtualenv==20.26.4 -watchfiles==0.24.0 -wcwidth==0.2.13 -webcolors==24.8.0 -webencodings==0.5.1 -websocket-client==1.8.0 -websockets==13.0.1 -werkzeug==3.0.4 -wheel==0.44.0 -widgetsnbextension==4.0.13 -wrapt==1.16.0 -zipp==3.20.1 - -# The following packages were excluded from the output: -# setuptools diff --git a/.constraints/py3.12.txt b/.constraints/py3.12.txt deleted file mode 100644 index 69471bfb..00000000 --- a/.constraints/py3.12.txt +++ /dev/null @@ -1,235 +0,0 @@ -# This file was autogenerated by uv via the following command: -# uv pip compile pyproject.toml -o .constraints/py3.12.txt --all-extras --no-annotate --python-version=3.12 --no-emit-package setuptools -absl-py==2.1.0 -accessible-pygments==0.0.5 -alabaster==1.0.0 -ampform==0.15.4 -anyio==4.4.0 -argon2-cffi==23.1.0 -argon2-cffi-bindings==21.2.0 -arrow==1.3.0 -asttokens==2.4.1 -astunparse==1.6.3 -async-lru==2.0.4 -attrs==24.2.0 -babel==2.16.0 -beautifulsoup4==4.12.3 -bleach==6.1.0 -cachetools==5.5.0 -cattrs==24.1.0 -certifi==2024.8.30 -cffi==1.17.1 -cfgv==3.4.0 -chardet==5.2.0 -charset-normalizer==3.3.2 -click==8.1.7 -cloudpickle==3.0.0 -colorama==0.4.6 -comm==0.2.2 -contourpy==1.3.0 -coverage==7.6.1 -cycler==0.12.1 -debugpy==1.8.5 -decorator==5.1.1 -defusedxml==0.7.1 -distlib==0.3.8 -dm-tree==0.1.8 -docstring-to-markdown==0.15 -docutils==0.21.2 -execnet==2.1.1 -executing==2.1.0 -fastjsonschema==2.20.0 -filelock==3.16.0 -flatbuffers==24.3.25 -fonttools==4.53.1 -fqdn==1.5.1 -gast==0.6.0 -gitdb==4.0.11 -gitpython==3.1.43 -google-pasta==0.2.0 -graphviz==0.20.3 -greenlet==3.1.0 -grpcio==1.66.1 -h11==0.14.0 -h5py==3.11.0 -hepunits==2.3.4 -httpcore==1.0.5 -httpx==0.27.2 -identify==2.6.0 -idna==3.8 -imagesize==1.4.1 -iminuit==2.29.1 -importlib-metadata==8.4.0 -iniconfig==2.0.0 -ipykernel==6.29.5 -ipympl==0.9.4 -ipython==8.27.0 -ipython-genutils==0.2.0 -ipywidgets==8.1.5 -isoduration==20.11.0 -jax==0.4.31 -jaxlib==0.4.31 -jedi==0.19.1 -jinja2==3.1.4 -json5==0.9.25 -jsonpointer==3.0.0 -jsonschema==4.23.0 -jsonschema-specifications==2023.12.1 -jupyter-cache==1.0.0 -jupyter-client==8.6.2 -jupyter-core==5.7.2 -jupyter-events==0.10.0 -jupyter-lsp==2.2.5 -jupyter-server==2.14.2 -jupyter-server-mathjax==0.2.6 -jupyter-server-terminals==0.5.3 -jupyterlab==4.2.5 -jupyterlab-code-formatter==3.0.2 -jupyterlab-git==0.50.1 -jupyterlab-lsp==5.1.0 -jupyterlab-myst==2.4.2 -jupyterlab-pygments==0.3.0 -jupyterlab-server==2.27.3 -jupyterlab-widgets==3.0.13 -keras==3.5.0 -kiwisolver==1.4.7 -latexcodec==3.0.0 -libclang==18.1.1 -llvmlite==0.43.0 -lsprotocol==2023.0.1 -markdown==3.7 -markdown-it-py==3.0.0 -markupsafe==2.1.5 -matplotlib==3.9.2 -matplotlib-inline==0.1.7 -mdit-py-plugins==0.4.2 -mdurl==0.1.2 -mistune==3.0.2 -ml-dtypes==0.4.0 -mpmath==1.3.0 -mypy==1.11.2 -mypy-extensions==1.0.0 -myst-nb==1.1.1 -myst-parser==4.0.0 -namex==0.0.8 -nbclient==0.6.8 -nbconvert==7.16.4 -nbdime==4.0.2 -nbformat==5.10.4 -nbmake==1.5.4 -nest-asyncio==1.6.0 -nodeenv==1.9.1 -notebook-shim==0.2.4 -numba==0.60.0 -numpy==1.26.4 -opt-einsum==3.3.0 -optree==0.12.1 -overrides==7.7.0 -packaging==24.1 -pandas==2.2.2 -pandocfilters==1.5.1 -parso==0.8.4 -particle==0.25.0 -pexpect==4.9.0 -phasespace==1.10.3 -pillow==10.4.0 -platformdirs==4.3.2 -pluggy==1.5.0 -pre-commit==3.8.0 -prometheus-client==0.20.0 -prompt-toolkit==3.0.47 -protobuf==4.25.4 -psutil==6.0.0 -ptyprocess==0.7.0 -pure-eval==0.2.3 -pybtex==0.24.0 -pybtex-docutils==1.0.3 -pycparser==2.22 -pydata-sphinx-theme==0.15.4 -pygments==2.18.0 -pyparsing==3.1.4 -pyproject-api==1.7.1 -pytest==8.3.3 -pytest-cov==5.0.0 -pytest-xdist==3.6.1 -python-constraint2==2.0.0b5 -python-dateutil==2.9.0.post0 -python-json-logger==2.0.7 -python-lsp-jsonrpc==1.1.2 -python-lsp-ruff==2.2.2 -python-lsp-server==1.12.0 -pytoolconfig==1.3.1 -pytz==2024.1 -pyyaml==6.0.2 -pyzmq==26.2.0 -qrules==0.10.2 -referencing==0.35.1 -requests==2.32.3 -rfc3339-validator==0.1.4 -rfc3986-validator==0.1.1 -rich==13.8.1 -rope==1.13.0 -rpds-py==0.20.0 -ruff==0.6.4 -scipy==1.14.1 -send2trash==1.8.3 -six==1.16.0 -smmap==5.0.1 -sniffio==1.3.1 -snowballstemmer==2.2.0 -soupsieve==2.6 -sphinx==8.0.2 -sphinx-api-relink==0.0.9 -sphinx-autobuild==2024.9.3 -sphinx-book-theme==1.1.3 -sphinx-codeautolink==0.15.2 -sphinx-copybutton==0.5.2 -sphinx-design==0.6.1 -sphinx-pybtex-etal-style==0.0.2 -sphinx-togglebutton==0.3.2 -sphinxcontrib-applehelp==2.0.0 -sphinxcontrib-bibtex==2.6.2 -sphinxcontrib-devhelp==2.0.0 -sphinxcontrib-htmlhelp==2.1.0 -sphinxcontrib-jsmath==1.0.1 -sphinxcontrib-qthelp==2.0.0 -sphinxcontrib-serializinghtml==2.0.0 -sqlalchemy==2.0.34 -stack-data==0.6.3 -starlette==0.38.5 -sympy==1.13.2 -tabulate==0.9.0 -tensorboard==2.17.1 -tensorboard-data-server==0.7.2 -tensorflow==2.17.0 -tensorflow-probability==0.24.0 -tensorwaves==0.4.12 -termcolor==2.4.0 -terminado==0.18.1 -tinycss2==1.3.0 -tornado==6.4.1 -tox==4.18.1 -tqdm==4.66.5 -traitlets==5.14.3 -types-python-dateutil==2.9.0.20240906 -typing-extensions==4.12.2 -tzdata==2024.1 -ujson==5.10.0 -uri-template==1.3.0 -urllib3==2.2.2 -uvicorn==0.30.6 -virtualenv==20.26.4 -watchfiles==0.24.0 -wcwidth==0.2.13 -webcolors==24.8.0 -webencodings==0.5.1 -websocket-client==1.8.0 -websockets==13.0.1 -werkzeug==3.0.4 -wheel==0.44.0 -widgetsnbextension==4.0.13 -wrapt==1.16.0 -zipp==3.20.1 - -# The following packages were excluded from the output: -# setuptools diff --git a/.constraints/py3.9.txt b/.constraints/py3.9.txt deleted file mode 100644 index 059f5a26..00000000 --- a/.constraints/py3.9.txt +++ /dev/null @@ -1,239 +0,0 @@ -# This file was autogenerated by uv via the following command: -# uv pip compile pyproject.toml -o .constraints/py3.9.txt --all-extras --no-annotate --python-version=3.9 --no-emit-package setuptools -absl-py==2.1.0 -accessible-pygments==0.0.5 -alabaster==0.7.16 -ampform==0.15.4 -anyio==4.4.0 -argon2-cffi==23.1.0 -argon2-cffi-bindings==21.2.0 -arrow==1.3.0 -asttokens==2.4.1 -astunparse==1.6.3 -async-lru==2.0.4 -attrs==24.2.0 -babel==2.16.0 -beautifulsoup4==4.12.3 -bleach==6.1.0 -cachetools==5.5.0 -cattrs==24.1.0 -certifi==2024.8.30 -cffi==1.17.1 -cfgv==3.4.0 -chardet==5.2.0 -charset-normalizer==3.3.2 -click==8.1.7 -cloudpickle==3.0.0 -colorama==0.4.6 -comm==0.2.2 -contourpy==1.3.0 -coverage==7.6.1 -cycler==0.12.1 -debugpy==1.8.5 -decorator==5.1.1 -defusedxml==0.7.1 -distlib==0.3.8 -dm-tree==0.1.8 -docstring-to-markdown==0.15 -docutils==0.21.2 -exceptiongroup==1.2.2 -execnet==2.1.1 -executing==2.1.0 -fastjsonschema==2.20.0 -filelock==3.16.0 -flatbuffers==24.3.25 -fonttools==4.53.1 -fqdn==1.5.1 -gast==0.6.0 -gitdb==4.0.11 -gitpython==3.1.43 -google-pasta==0.2.0 -graphviz==0.20.3 -greenlet==3.1.0 -grpcio==1.66.1 -h11==0.14.0 -h5py==3.11.0 -hepunits==2.3.4 -httpcore==1.0.5 -httpx==0.27.2 -identify==2.6.0 -idna==3.8 -imagesize==1.4.1 -iminuit==2.29.1 -importlib-metadata==8.4.0 -importlib-resources==6.4.5 -iniconfig==2.0.0 -ipykernel==6.29.5 -ipympl==0.9.4 -ipython==8.18.1 -ipython-genutils==0.2.0 -ipywidgets==8.1.5 -isoduration==20.11.0 -jax==0.4.30 -jaxlib==0.4.30 -jedi==0.19.1 -jinja2==3.1.4 -json5==0.9.25 -jsonpointer==3.0.0 -jsonschema==4.23.0 -jsonschema-specifications==2023.12.1 -jupyter-cache==1.0.0 -jupyter-client==8.6.2 -jupyter-core==5.7.2 -jupyter-events==0.10.0 -jupyter-lsp==2.2.5 -jupyter-server==2.14.2 -jupyter-server-mathjax==0.2.6 -jupyter-server-terminals==0.5.3 -jupyterlab==4.2.5 -jupyterlab-code-formatter==3.0.2 -jupyterlab-git==0.50.1 -jupyterlab-lsp==5.1.0 -jupyterlab-myst==2.4.2 -jupyterlab-pygments==0.3.0 -jupyterlab-server==2.27.3 -jupyterlab-widgets==3.0.13 -keras==3.5.0 -kiwisolver==1.4.7 -latexcodec==3.0.0 -libclang==18.1.1 -llvmlite==0.43.0 -lsprotocol==2023.0.1 -markdown==3.7 -markdown-it-py==3.0.0 -markupsafe==2.1.5 -matplotlib==3.9.2 -matplotlib-inline==0.1.7 -mdit-py-plugins==0.4.2 -mdurl==0.1.2 -mistune==3.0.2 -ml-dtypes==0.4.0 -mpmath==1.3.0 -mypy==1.11.2 -mypy-extensions==1.0.0 -myst-nb==1.1.1 -myst-parser==3.0.1 -namex==0.0.8 -nbclient==0.6.8 -nbconvert==7.16.4 -nbdime==4.0.2 -nbformat==5.10.4 -nbmake==1.5.4 -nest-asyncio==1.6.0 -nodeenv==1.9.1 -notebook-shim==0.2.4 -numba==0.60.0 -numpy==1.26.4 -opt-einsum==3.3.0 -optree==0.12.1 -overrides==7.7.0 -packaging==24.1 -pandas==2.2.2 -pandocfilters==1.5.1 -parso==0.8.4 -particle==0.25.0 -pexpect==4.9.0 -phasespace==1.10.3 -pillow==10.4.0 -platformdirs==4.3.2 -pluggy==1.5.0 -pre-commit==3.8.0 -prometheus-client==0.20.0 -prompt-toolkit==3.0.47 -protobuf==4.25.4 -psutil==6.0.0 -ptyprocess==0.7.0 -pure-eval==0.2.3 -pybtex==0.24.0 -pybtex-docutils==1.0.3 -pycparser==2.22 -pydata-sphinx-theme==0.15.4 -pygments==2.18.0 -pyparsing==3.1.4 -pyproject-api==1.7.1 -pytest==8.3.3 -pytest-cov==5.0.0 -pytest-xdist==3.6.1 -python-constraint2==2.0.0b5 -python-dateutil==2.9.0.post0 -python-json-logger==2.0.7 -python-lsp-jsonrpc==1.1.2 -python-lsp-ruff==2.2.2 -python-lsp-server==1.12.0 -pytoolconfig==1.3.1 -pytz==2024.1 -pyyaml==6.0.2 -pyzmq==26.2.0 -qrules==0.10.2 -referencing==0.35.1 -requests==2.32.3 -rfc3339-validator==0.1.4 -rfc3986-validator==0.1.1 -rich==13.8.1 -rope==1.13.0 -rpds-py==0.20.0 -ruff==0.6.4 -scipy==1.13.1 -send2trash==1.8.3 -six==1.16.0 -smmap==5.0.1 -sniffio==1.3.1 -snowballstemmer==2.2.0 -soupsieve==2.6 -sphinx==7.4.7 -sphinx-api-relink==0.0.9 -sphinx-autobuild==2024.9.3 -sphinx-book-theme==1.1.3 -sphinx-codeautolink==0.15.2 -sphinx-copybutton==0.5.2 -sphinx-design==0.6.1 -sphinx-pybtex-etal-style==0.0.2 -sphinx-togglebutton==0.3.2 -sphinxcontrib-applehelp==2.0.0 -sphinxcontrib-bibtex==2.6.2 -sphinxcontrib-devhelp==2.0.0 -sphinxcontrib-htmlhelp==2.1.0 -sphinxcontrib-jsmath==1.0.1 -sphinxcontrib-qthelp==2.0.0 -sphinxcontrib-serializinghtml==2.0.0 -sqlalchemy==2.0.34 -stack-data==0.6.3 -starlette==0.38.5 -sympy==1.13.2 -tabulate==0.9.0 -tensorboard==2.17.1 -tensorboard-data-server==0.7.2 -tensorflow==2.17.0 -tensorflow-io-gcs-filesystem==0.37.1 -tensorflow-probability==0.24.0 -tensorwaves==0.4.12 -termcolor==2.4.0 -terminado==0.18.1 -tinycss2==1.3.0 -tomli==2.0.1 -tornado==6.4.1 -tox==4.18.1 -tqdm==4.66.5 -traitlets==5.14.3 -types-python-dateutil==2.9.0.20240906 -typing-extensions==4.12.2 -tzdata==2024.1 -ujson==5.10.0 -uri-template==1.3.0 -urllib3==2.2.2 -uvicorn==0.30.6 -virtualenv==20.26.4 -watchfiles==0.24.0 -wcwidth==0.2.13 -webcolors==24.8.0 -webencodings==0.5.1 -websocket-client==1.8.0 -websockets==13.0.1 -werkzeug==3.0.4 -wheel==0.44.0 -widgetsnbextension==4.0.13 -wrapt==1.16.0 -zipp==3.20.1 - -# The following packages were excluded from the output: -# setuptools diff --git a/.cspell.json b/.cspell.json index 40413434..342ab87f 100644 --- a/.cspell.json +++ b/.cspell.json @@ -17,10 +17,8 @@ "**/.cspell.json", "*.ico", "*particle*.*ml", - ".constraints/*.txt", ".editorconfig", ".envrc", - ".gitattributes", ".gitignore", ".pre-commit-config.yaml", ".prettierignore", @@ -29,8 +27,7 @@ ".vscode/.gitignore", "codecov.yml", "docs/conf.py", - "pyproject.toml", - "tox.ini" + "pyproject.toml" ], "ignoreWords": [ "Jpsi", diff --git a/.editorconfig b/.editorconfig index 85a377a8..0dbd807a 100644 --- a/.editorconfig +++ b/.editorconfig @@ -21,3 +21,6 @@ indent_size = unset [setup.cfg] indent_size = 4 + +[uv.lock] +indent_size = 4 diff --git a/.envrc b/.envrc index e1d415a5..41fd2cab 100644 --- a/.envrc +++ b/.envrc @@ -1,10 +1,2 @@ -if [ -e .venv ]; then - source .venv/bin/activate -elif [ -e venv ]; then - source venv/bin/activate -elif [ -e .pixi ]; then - watch_file pixi.lock - eval "$(pixi shell-hook)" -else - layout anaconda -fi +uv sync --all-extras --quiet +source .venv/bin/activate diff --git a/.gitattributes b/.gitattributes deleted file mode 100644 index 18f6c7e9..00000000 --- a/.gitattributes +++ /dev/null @@ -1 +0,0 @@ -pixi.lock linguist-language=YAML linguist-generated=true diff --git a/.github/workflows/cd.yml b/.github/workflows/cd.yml index 54ae3bc8..cf34984b 100644 --- a/.github/workflows/cd.yml +++ b/.github/workflows/cd.yml @@ -9,9 +9,9 @@ on: jobs: milestone: if: startsWith(github.ref, 'refs/tags') - uses: ComPWA/actions/.github/workflows/close-milestone.yml@v1 + uses: ComPWA/actions/.github/workflows/close-milestone.yml@v2 package-name: - uses: ComPWA/actions/.github/workflows/get-pypi-name.yml@v1 + uses: ComPWA/actions/.github/workflows/get-pypi-name.yml@v2 pypi: environment: name: PyPI @@ -22,11 +22,11 @@ jobs: - package-name permissions: id-token: write - runs-on: ubuntu-22.04 + runs-on: ubuntu-24.04 steps: - - uses: ComPWA/actions/build-pypi-distribution@v1 + - uses: ComPWA/actions/build-pypi-distribution@v2 - uses: pypa/gh-action-pypi-publish@release/v1 push: if: startsWith(github.ref, 'refs/tags') && !github.event.release.prerelease secrets: inherit - uses: ComPWA/actions/.github/workflows/push-to-version-branches.yml@v1 + uses: ComPWA/actions/.github/workflows/push-to-version-branches.yml@v2 diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index a1ef5869..2262b74c 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -28,7 +28,7 @@ on: jobs: doc: - uses: ComPWA/actions/.github/workflows/ci-docs.yml@v1 + uses: ComPWA/actions/.github/workflows/ci-docs.yml@v2 permissions: pages: write id-token: write @@ -37,7 +37,7 @@ jobs: gh-pages: true specific-pip-packages: ${{ inputs.specific-pip-packages }} pytest: - uses: ComPWA/actions/.github/workflows/pytest.yml@v1 + uses: ComPWA/actions/.github/workflows/pytest.yml@v2 with: coverage-target: ampform_dpd macos-python-version: "3.9" @@ -46,4 +46,4 @@ jobs: if: inputs.specific-pip-packages == '' secrets: token: ${{ secrets.PAT }} - uses: ComPWA/actions/.github/workflows/pre-commit.yml@v1 + uses: ComPWA/actions/.github/workflows/pre-commit.yml@v2 diff --git a/.github/workflows/clean-caches.yml b/.github/workflows/clean-caches.yml index a66c407b..7986e0cf 100644 --- a/.github/workflows/clean-caches.yml +++ b/.github/workflows/clean-caches.yml @@ -14,9 +14,9 @@ on: jobs: cleanup: name: Remove caches - runs-on: ubuntu-22.04 + runs-on: ubuntu-24.04 steps: - - uses: ComPWA/actions/clean-caches@v1 + - uses: ComPWA/actions/clean-caches@v2 with: GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} ref: ${{ inputs.ref }} diff --git a/.github/workflows/requirements.yml b/.github/workflows/lock.yml similarity index 68% rename from .github/workflows/requirements.yml rename to .github/workflows/lock.yml index ec42f28d..6a138583 100644 --- a/.github/workflows/requirements.yml +++ b/.github/workflows/lock.yml @@ -1,4 +1,4 @@ -name: Requirements +name: Update concurrency: group: ${{ github.workflow }}-${{ github.ref }} @@ -11,14 +11,12 @@ on: - main - epic/* paths: - - .constraints/py3.*.txt - .pre-commit-config.yaml - schedule: - - cron: "0 3 7 */2 *" + - uv.lock workflow_dispatch: jobs: - requirements: - uses: ComPWA/actions/.github/workflows/requirements.yml@v1 + lock: + uses: ComPWA/actions/.github/workflows/lock.yml@v2 secrets: token: ${{ secrets.PAT }} diff --git a/.github/workflows/pr-linting.yml b/.github/workflows/pr-linting.yml index 0fab8410..44dc9e42 100644 --- a/.github/workflows/pr-linting.yml +++ b/.github/workflows/pr-linting.yml @@ -11,4 +11,4 @@ on: jobs: lint-pr: - uses: ComPWA/actions/.github/workflows/pr-linting.yml@v1 + uses: ComPWA/actions/.github/workflows/pr-linting.yml@v2 diff --git a/.github/workflows/release-drafter.yml b/.github/workflows/release-drafter.yml index 52340935..32c6579c 100644 --- a/.github/workflows/release-drafter.yml +++ b/.github/workflows/release-drafter.yml @@ -9,7 +9,7 @@ on: jobs: update_release_draft: - runs-on: ubuntu-22.04 + runs-on: ubuntu-24.04 steps: - uses: release-drafter/release-drafter@v6 env: diff --git a/.gitignore b/.gitignore index 2b89bbba..ab633b6d 100644 --- a/.gitignore +++ b/.gitignore @@ -23,7 +23,6 @@ __pycache__/ .pytest_cache/ .virtual_documents/ *.pyc -*condaenv.* coverage.* htmlcov/ prof/ @@ -31,7 +30,6 @@ typings/ # Virtual environments *venv/ -.pixi/ .tox/ pyvenv*/ diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 92afb790..25a8e4ab 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,9 +1,10 @@ ci: - autoupdate_commit_msg: "MAINT: update pip constraints and pre-commit" - autoupdate_schedule: quarterly # already done by requirements-cron.yml + autoupdate_commit_msg: "MAINT: update lock files" + autoupdate_schedule: quarterly skip: - mypy - pyright + - uv-lock repos: - repo: meta @@ -12,14 +13,12 @@ repos: - id: check-useless-excludes - repo: https://github.com/ComPWA/policy - rev: 0.4.0 + rev: 0.5.0 hooks: - id: check-dev-files args: - --doc-apt-packages=graphviz - --github-pages - - --no-prettierrc - - --pin-requirements=bimonthly - --repo-name=ampform-dpd - --repo-title=AmpForm-DPD - id: colab-toc-visible @@ -54,7 +53,7 @@ repos: metadata.vscode - repo: https://github.com/astral-sh/ruff-pre-commit - rev: v0.6.4 + rev: v0.7.0 hooks: - id: ruff args: [--fix] @@ -63,7 +62,7 @@ repos: types_or: [python, pyi, jupyter] - repo: https://github.com/pre-commit/pre-commit-hooks - rev: v4.6.0 + rev: v5.0.0 hooks: - id: check-ast - id: check-case-conflict @@ -95,7 +94,7 @@ repos: - --in-place - repo: https://github.com/streetsidesoftware/cspell-cli - rev: v8.13.3 + rev: v8.15.1 hooks: - id: cspell @@ -120,7 +119,12 @@ repos: types: - python - - repo: https://github.com/ComPWA/mirrors-pyright - rev: v1.1.379 + - repo: https://github.com/ComPWA/pyright-pre-commit + rev: v1.1.385 hooks: - id: pyright + + - repo: https://github.com/astral-sh/uv-pre-commit + rev: 0.4.24 + hooks: + - id: uv-lock diff --git a/.python-version b/.python-version new file mode 100644 index 00000000..e4fba218 --- /dev/null +++ b/.python-version @@ -0,0 +1 @@ +3.12 diff --git a/.readthedocs.yml b/.readthedocs.yml index 4cf45a5c..052363b3 100644 --- a/.readthedocs.yml +++ b/.readthedocs.yml @@ -1,20 +1,17 @@ version: 2 -sphinx: - builder: dirhtml - configuration: docs/conf.py - fail_on_warning: true - -formats: - - htmlzip - build: - os: ubuntu-22.04 + os: ubuntu-24.04 tools: - python: "3.9" - apt_packages: - - graphviz - jobs: - post_install: - - python -m pip install 'uv>=0.2.0' - - python -m uv pip install -c .constraints/py3.9.txt -e .[doc] + python: "3.12" + commands: + - |- + export PIXI_HOME=$READTHEDOCS_VIRTUALENV_PATH + curl -fsSL https://pixi.sh/install.sh | bash + pixi global install graphviz uv + - |- + export UV_LINK_MODE=copy + uv run --extra doc --locked --with tox \ + tox -e doc + mkdir -p $READTHEDOCS_OUTPUT + mv docs/_build/html $READTHEDOCS_OUTPUT diff --git a/.vscode/settings.json b/.vscode/settings.json index 8d5bc234..3d932412 100644 --- a/.vscode/settings.json +++ b/.vscode/settings.json @@ -33,10 +33,6 @@ "cSpell.enabled": true, "diffEditor.experimental.showMoves": true, "editor.formatOnSave": true, - "files.associations": { - "**/.constraints/py*.txt": "pip-requirements", - "**/pixi.lock": "yaml" - }, "files.eol": "\n", "github-actions.workflows.pinned.workflows": [".github/workflows/ci.yml"], "gitlens.telemetry.enabled": false, @@ -51,7 +47,6 @@ "notebook.gotoSymbols.showAllSymbols": true, "python.analysis.autoImportCompletions": false, "python.analysis.inlayHints.pytestParameters": true, - "python.analysis.typeCheckingMode": "strict", "python.terminal.activateEnvironment": false, "python.testing.pytestArgs": ["--color=no"], "python.testing.pytestEnabled": true, @@ -63,7 +58,7 @@ "ruff.organizeImports": true, "search.exclude": { "**/tests/**/__init__.py": true, - ".constraints/*.txt": true, + "**/uv.lock": true, "typings/**": true }, "telemetry.telemetryLevel": "off", diff --git a/README.md b/README.md index b5acac33..05241366 100644 --- a/README.md +++ b/README.md @@ -12,6 +12,7 @@ [![code style: prettier](https://img.shields.io/badge/code_style-prettier-ff69b4.svg?style=flat-square)](https://github.com/prettier/prettier) [![Spelling checked](https://img.shields.io/badge/cspell-checked-brightgreen.svg)](https://github.com/streetsidesoftware/cspell/tree/master/packages/cspell) [![Ruff](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/charliermarsh/ruff/main/assets/badge/v2.json)](https://github.com/astral-sh/ruff) +[![uv](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/uv/main/assets/badge/v0.json)](https://github.com/astral-sh/uv) This repository is a (temporary) extension of [AmpForm](https://ampform.rtfd.io) and provides a symbolic implementation of Dalitz-plot decomposition ([10.1103/PhysRevD.101.034033](https://journals.aps.org/prd/abstract/10.1103/PhysRevD.101.034033)) with [SymPy](https://www.sympy.org/en/index.html). It has been extracted from the [ComPWA/polarimetry](https://github.com/ComPWA/polarimetry) repository ([10.1007/JHEP07(2023)228]()). diff --git a/docs/conf.py b/docs/conf.py index fb7ed7b4..df1fe06a 100644 --- a/docs/conf.py +++ b/docs/conf.py @@ -30,7 +30,9 @@ REPO_NAME = "ampform-dpd" REPO_TITLE = "Symbolic Dalitz-Plot Decomposition" -BINDER_LINK = f"https://mybinder.org/v2/gh/{ORGANIZATION}/{REPO_NAME}/{BRANCH}?filepath=docs/usage" +BINDER_LINK = ( + f"https://mybinder.org/v2/gh/{ORGANIZATION}/{REPO_NAME}/{BRANCH}?urlpath=lab" +) EXECUTE_NB = get_execution_mode() != "off" @@ -142,7 +144,7 @@ }, { "name": "Launch on Binder", - "url": f"https://mybinder.org/v2/gh/{ORGANIZATION}/{REPO_NAME}/{BRANCH}?filepath=docs", + "url": f"https://mybinder.org/v2/gh/{ORGANIZATION}/{REPO_NAME}/{BRANCH}?urlpath=lab", "icon": "https://mybinder.readthedocs.io/en/latest/_static/favicon.png", "type": "url", }, diff --git a/docs/index.md b/docs/index.md index 9f4be504..5a41005b 100644 --- a/docs/index.md +++ b/docs/index.md @@ -6,7 +6,7 @@ [![Supported Python versions](https://img.shields.io/pypi/pyversions/ampform-dpd)](https://pypi.org/project/ampform-dpd) [![Google Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/ComPWA/ampform/blob/main) -[![Binder](https://static.mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/ComPWA/ampform/main?filepath=docs) +[![Binder](https://static.mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/ComPWA/ampform/main?urlpath=lab) This Python package is a (temporary) extension of [AmpForm](https://ampform.rtfd.io) and provides a symbolic implementation of Dalitz-plot decomposition ([10.1103/PhysRevD.101.034033](https://journals.aps.org/prd/abstract/10.1103/PhysRevD.101.034033)) with [SymPy](https://www.sympy.org/en/index.html). It has been extracted from the [ComPWA/polarimetry](https://github.com/ComPWA/polarimetry) repository, which is not yet public. diff --git a/environment.yml b/environment.yml deleted file mode 100644 index d262623b..00000000 --- a/environment.yml +++ /dev/null @@ -1,11 +0,0 @@ -name: ampform-dpd -channels: - - defaults -dependencies: - - graphviz - - python==3.9.* - - pip - - pip: - - -c .constraints/py3.9.txt -e .[dev] -variables: - PYTHONHASHSEED: 0 diff --git a/pyproject.toml b/pyproject.toml index 1354b9de..ab0c41d9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -45,18 +45,13 @@ dev = [ "ampform-dpd[jupyter]", "ampform-dpd[sty]", "ampform-dpd[test]", - "sphinx-autobuild!=2024.04.*", "sphinx-autobuild", - "tox >=1.9", # for skip_install, use_develop + "tox", ] doc = [ - "graphviz", - "ipympl", - "ipywidgets", - "matplotlib", - "myst-nb >=0.14", # nb_render_markdown_format for Markdown tables - "pandas", - "sphinx-api-relink >=0.0.4", + "ampform-dpd[notebooks]", + "myst-nb", + "sphinx-api-relink", "sphinx-book-theme", "sphinx-codeautolink[ipython]", "sphinx-copybutton", @@ -64,8 +59,6 @@ doc = [ "sphinx-pybtex-etal-style", "sphinx-togglebutton", "sphinxcontrib-bibtex", - "tensorwaves[phsp]", - "tqdm", ] jax = [ "numpy==1.*", @@ -73,7 +66,6 @@ jax = [ ] jupyter = [ "ampform-dpd[doc]", - "jupyterlab >=3.0", "jupyterlab", "jupyterlab-code-formatter >=3.0.0", "jupyterlab-git", @@ -82,13 +74,22 @@ jupyter = [ "python-lsp-ruff", "python-lsp-server[rope]", ] +notebooks = [ + "graphviz", + "ipympl", + "ipywidgets", + "matplotlib", + "pandas", + "tensorwaves[phsp]", + "tqdm", +] numba = [ "tensorwaves[numba]", ] sty = [ "ampform-dpd[types]", "mypy", - "pre-commit >=1.4.0", + "pre-commit-uv", "ruff", ] tensorflow = [ @@ -97,7 +98,7 @@ tensorflow = [ test = [ "nbmake", "numpy", - "pytest >=6.0", # pyproject.toml + "pytest", "pytest-cov", "pytest-xdist", ] @@ -109,7 +110,7 @@ types = [ "pybtex", "pytest", "sphinx", - "sphinx-api-relink >=0.0.4", + "sphinx-api-relink", ] [project.readme] @@ -135,7 +136,7 @@ where = ["src"] [tool.setuptools_scm] local_scheme = "no-local-version" -version_scheme = "post-release" +version_scheme = "only-version" write_to = "src/ampform_dpd/version.py" [tool.mypy] @@ -157,110 +158,8 @@ disallow_incomplete_defs = false disallow_untyped_defs = false module = ["tests.*"] -[tool.pixi.project] -channels = ["conda-forge"] -platforms = ["linux-64"] - -[tool.pixi.activation.env] -PRETTIER_LEGACY_CLI = "1" -PYTHONHASHSEED = "0" - -[tool.pixi.dependencies] -graphviz = "*" -python = "3.9.*" - -[tool.pixi.environments] -default = {features = [ - "dev", - "doc", - "jax", - "jupyter", - "numba", - "sty", - "tensorflow", - "test", - "tf", - "types", -]} - -[tool.pixi.feature.dev.tasks.ci] -depends_on = ["cov", "docnb", "linkcheck", "sty"] - -[tool.pixi.feature.dev.tasks.cov] -cmd = """ -pytest src tests \ - --cov-fail-under=50 \ - --cov-report=html \ - --cov-report=xml \ - --cov=ampform_dpd -""" - -[tool.pixi.feature.dev.tasks.doc] -cmd = """ -sphinx-build \ - --builder html \ - --fail-on-warning \ - --keep-going \ - docs/ docs/_build/html -""" -env = {FORCE_COLOR = "yes"} - -[tool.pixi.feature.dev.tasks.doclive] -cmd = """ -sphinx-autobuild \ - --open-browser \ - --re-ignore '.*/__pycache__/.*' \ - --re-ignore '.*/.ipynb_checkpoints/.*' \ - --re-ignore '.*\\.pdf' \ - --re-ignore '.*\\.pkl' \ - --re-ignore '.*\\.png' \ - --re-ignore '.*\\.svg' \ - --re-ignore '.*\\.tmp' \ - --re-ignore 'docs/_build/.*' \ - --re-ignore 'docs/_images/.*' \ - --re-ignore 'docs/api/.*' \ - --re-ignore 'docs/export/.*' \ - --watch docs \ - --watch src \ - docs/ docs/_build/html -""" -env = {FORCE_COLOR = "yes"} - -[tool.pixi.feature.dev.tasks.docnb] -cmd = "pixi run doc" -env = {EXECUTE_NB = "yes", FORCE_COLOR = "yes"} - -[tool.pixi.feature.dev.tasks.docnb-force] -cmd = "pixi run doc" -env = {FORCE_COLOR = "yes", FORCE_EXECUTE_NB = "yes"} - -[tool.pixi.feature.dev.tasks.docnblive] -cmd = "pixi run doclive" -env = {EXECUTE_NB = "yes", FORCE_COLOR = "yes"} - -[tool.pixi.feature.dev.tasks.linkcheck] -cmd = """ -sphinx-build \ - --builder linkcheck \ - --show-traceback \ - docs/ docs/_build/linkcheck -""" -env = {FORCE_COLOR = "yes"} - -[tool.pixi.feature.dev.tasks.nb] -cmd = "pytest --nbmake --nbmake-timeout=3600 docs" - -[tool.pixi.feature.dev.tasks.sty] -cmd = "pre-commit run -a" -env = {SKIP = "pyright"} - -[tool.pixi.feature.dev.tasks.tests] -cmd = "pytest" - -[tool.pixi.pypi-dependencies] -ampform-dpd = {path = ".", editable = true} - [tool.pyright] +exclude = ["**/.venv/"] reportArgumentType = false reportAssignmentType = false reportAttributeAccessIssue = false @@ -466,3 +365,122 @@ sort_first = [ ] spaces_indent_inline_array = 4 trailing_comma_inline_array = true + +[tool.tox] +legacy_tox_ini = """ +[tox] +envlist = + cov, + docnb-force, + linkcheck, + sty, +skip_install = True +skip_missing_interpreters = True +skipsdist = True + +[testenv] +allowlist_externals = + pytest +commands = + pytest {posargs} +description = Run all unit tests +passenv = * +setenv = + PYTHONHASHSEED = 0 + +[testenv:cov] +allowlist_externals = + pytest +commands = + pytest {posargs:src tests} \ + --cov-fail-under=50 \ + --cov-report=html \ + --cov-report=xml \ + --cov=ampform_dpd +description = Compute test coverage + +[testenv:doc] +allowlist_externals = + sphinx-build +commands = + sphinx-build \ + --builder=html \ + --fail-on-warning \ + --keep-going \ + docs/ docs/_build/html +description = Build documentation with Sphinx + +[testenv:docnb] +base = doc +description = {[testenv:doc]description} with cached notebook execution +setenv = + {[testenv:doc]setenv} + EXECUTE_NB = yes + +[testenv:docnb-force] +base = doc +description = {[testenv:doc]description} with notebook execution (no cache) +setenv = + {[testenv:doc]setenv} + FORCE_EXECUTE_NB = yes + +[testenv:doclive] +allowlist_externals = + sphinx-autobuild +commands = + sphinx-autobuild \ + --ignore=docs/_build/ \ + --ignore=docs/_images/ \ + --ignore=docs/api/ \ + --ignore=docs/export/ \ + --open-browser \ + --port=0 \ + --re-ignore='.*/__pycache__/.*' \ + --re-ignore='.*/.ipynb_checkpoints/.*' \ + --re-ignore='.*/.virtual_documents/.*' \ + --re-ignore='.*\\.pdf' \ + --re-ignore='.*\\.pkl' \ + --re-ignore='.*\\.png' \ + --re-ignore='.*\\.svg' \ + --re-ignore='.*\\.tmp' \ + --watch=docs \ + --watch=src \ + docs/ docs/_build/html +description = Set up a server to directly preview changes to the HTML pages + +[testenv:docnblive] +base = doclive +description = {[testenv:doclive]description} with cached notebook execution +setenv = + {[testenv:doclive]setenv} + EXECUTE_NB = yes + +[testenv:linkcheck] +allowlist_externals = + sphinx-build +commands = + sphinx-build \ + --builder=linkcheck \ + --show-traceback \ + docs/ docs/_build/linkcheck +description = Check external links in the documentation (requires internet connection) +setenv = + PYTHONWARNINGS = + +[testenv:nb] +allowlist_externals = + pytest +commands = + pytest --nbmake --nbmake-timeout=3600 {posargs:docs} +description = Run all notebooks with pytest + +[testenv:sty] +allowlist_externals = + pre-commit +commands = + pre-commit run --all-files {posargs} +description = Perform all linting, formatting, and spelling checks +setenv = + {[testenv]setenv} + SKIP = pyright +""" diff --git a/tox.ini b/tox.ini deleted file mode 100644 index d4b75d28..00000000 --- a/tox.ini +++ /dev/null @@ -1,179 +0,0 @@ -[tox] -envlist = - doc, - nb, - py, - sty, -skip_install = True -skip_missing_interpreters = True -skipsdist = True - -[testenv] -allowlist_externals = - pytest -commands = - pytest {posargs} -description = - Run all unit tests -setenv = - PYTHONHASHSEED = 0 - -[testenv:cov] -allowlist_externals = - pytest -commands = - pytest {posargs:src tests} \ - --cov-fail-under=50 \ - --cov-report=html \ - --cov-report=xml \ - --cov=ampform_dpd -description = - Compute test coverage - -[testenv:doc] -allowlist_externals = - sphinx-build -commands = - sphinx-build \ - --builder html \ - --fail-on-warning \ - --keep-going \ - docs/ docs/_build/html -description = - Build documentation with Sphinx -passenv = * -setenv = - FORCE_COLOR = yes - PYTHONHASHSEED = 0 - -[testenv:doclive] -allowlist_externals = - sphinx-autobuild -commands = - sphinx-autobuild \ - --open-browser \ - --re-ignore .*/.ipynb_checkpoints/.* \ - --re-ignore .*/__pycache__/.* \ - --re-ignore .*\.pkl \ - --re-ignore .*\.pdf \ - --re-ignore .*\.png \ - --re-ignore .*\.svg \ - --re-ignore .*\.tmp \ - --re-ignore docs/_build/.* \ - --re-ignore docs/_images/.* \ - --re-ignore docs/api/.* \ - --re-ignore docs/export/.* \ - --watch docs \ - --watch src \ - docs/ docs/_build/html -description = - Set up a server to directly preview changes to the HTML pages -passenv = * -setenv = - FORCE_COLOR = yes - PYTHONHASHSEED = 0 - -[testenv:docnb] -allowlist_externals = - sphinx-build -commands = - sphinx-build \ - --fail-on-warning \ - --keep-going \ - --builder html \ - docs/ docs/_build/html -description = - Execute Jupyter notebooks and build documentation with Sphinx -passenv = * -setenv = - EXECUTE_NB = yes - FORCE_COLOR = yes - PYTHONHASHSEED = 0 - -[testenv:docnblive] -allowlist_externals = - sphinx-autobuild -commands = - sphinx-autobuild \ - --open-browser \ - --re-ignore .*/__pycache__/.* \ - --re-ignore .*/.ipynb_checkpoints/.* \ - --re-ignore .*\.pdf \ - --re-ignore .*\.pkl \ - --re-ignore .*\.png \ - --re-ignore .*\.svg \ - --re-ignore .*\.tmp \ - --re-ignore docs/_build/.* \ - --re-ignore docs/_images/.* \ - --re-ignore docs/api/.* \ - --re-ignore docs/export/.* \ - --watch docs \ - --watch src \ - docs/ docs/_build/html -description = - Set up a server to directly preview changes to the HTML pages -passenv = * -setenv = - EXECUTE_NB = yes - FORCE_COLOR = yes - PYTHONHASHSEED = 0 - -[testenv:docnb-force] -allowlist_externals = - sphinx-build -commands = - sphinx-build \ - --builder html \ - --fail-on-warning \ - --keep-going \ - docs/ docs/_build/html -description = - Execute Jupyter notebooks and build documentation with Sphinx -setenv = - FORCE_COLOR = yes - FORCE_EXECUTE_NB = yes - PYTHONHASHSEED = 0 - -[testenv:jcache] -allowlist_externals = - jcache -changedir = docs/_build -commands = - jcache {posargs:notebook list} -description = - Inspect Jupyter cache -setenv = - PYTHONHASHSEED = 0 - -[testenv:linkcheck] -allowlist_externals = - sphinx-build -commands = - sphinx-build \ - --builder linkcheck \ - --show-traceback \ - docs/ docs/_build/linkcheck -description = - Check external links in the documentation (requires internet connection) -passenv = * -setenv = - FORCE_COLOR = yes - -[testenv:nb] -allowlist_externals = - pytest -commands = - pytest --nbmake --nbmake-timeout=3600 {posargs:docs} -description = - Run all notebooks with pytest - -[testenv:sty] -allowlist_externals = - pre-commit -commands = - pre-commit run {posargs} -a -description = - Perform all linting, formatting, and spelling checks -setenv = - 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