diff --git a/.github/actions/build-python-package/action.yaml b/.github/actions/build-python-package/action.yaml index 6aa654ca..e1afe6e8 100644 --- a/.github/actions/build-python-package/action.yaml +++ b/.github/actions/build-python-package/action.yaml @@ -19,16 +19,35 @@ runs: steps: - uses: actions/checkout@v5 + - uses: actions/setup-python@v6 with: python-version: ${{ inputs.python-version }} cache: 'pip' + cache-dependency-path: | + continuous-integration/environment.yaml + pyproject.toml + poetry.lock + + - name: Cache conda packages + uses: actions/cache@v5 + with: + path: ~/conda_pkgs_dir + key: + ${{ runner.os }}-conda-${{ hashFiles('continuous-integration/environment.yaml') }} + + - name: Install base Conda environment + uses: conda-incubator/setup-miniconda@v4 + with: + environment-file: continuous-integration/environment.yaml + python-version: ${{ inputs.python-version }} + miniforge-version: latest + use-only-tar-bz2: true - name: Build python package shell: bash -l {0} run: | - pip install build - python3 -m build + poetry build - uses: actions/upload-artifact@v7 with: diff --git a/.github/actions/environment/action.yaml b/.github/actions/environment/action.yaml index 3a31ec9e..bb4c2831 100644 --- a/.github/actions/environment/action.yaml +++ b/.github/actions/environment/action.yaml @@ -13,16 +13,13 @@ inputs: required: false default: 'pinned' extras: - description: Which set of emsarray 'extras' to install. + description: Which set of emsarray extras to install. required: false - default: 'testing' - strict: - description: | - Whether to install transitive dependencies automatically. When installing - from a set of pinned dependencies the assumption is that all dependencies - are pinned, so there should be no missing transitive dependencies. + default: 'complete' + groups: + description: Which set of emsarray dependency groups to install. required: false - default: 'false' + default: 'testing' runs: using: composite @@ -34,9 +31,9 @@ runs: python-version: ${{ inputs.python-version }} cache: 'pip' cache-dependency-path: | - continuous-integration/requirements-${{ inputs.python-version }}.txt continuous-integration/environment.yaml - setup.cfg + pyproject.toml + poetry.lock - name: Fetch built emsarray package uses: actions/download-artifact@v8 @@ -56,45 +53,30 @@ runs: with: environment-file: continuous-integration/environment.yaml python-version: ${{ inputs.python-version }} - channels: conda-forge - - shell: bash -l {0} - run: | - conda install -c conda-forge pip wheel + miniforge-version: latest + use-only-tar-bz2: true - - name: Install pinned dependencies - if: ${{ inputs.dependencies == 'pinned' }} + - name: Install dependencies shell: bash -l {0} run: | wheels=( dist/emsarray-*.whl ) - args=() - if [[ "${{ inputs.strict }}" == "true" ]] ; then args+=('--no-deps') ; fi - pip install \ - "${args[@]}" \ - -r continuous-integration/requirements-${{ inputs.python-version }}.txt \ - "${wheels[0]}[${{ inputs.extras }}]" - pip check + if [[ "${INPUTS_DEPENDENCIES}" == "minimum" ]] ; then + export POETRY_SOLVER_MIN_RELEASE_AGE=365 + export POETRY_SOLVER_MIN_RELEASE_AGE_EXCLUDE=certify,idna + # Remove the docs dependency group. It has minimum requirements that + # do not adhere to the minimum release age solver. This is jank. + sed -i -e '/^docs = \[$/,/^\]$/{d}' "pyproject.toml" + fi + if [[ "${INPUTS_DEPENDENCIES}" != "pinned" ]] ; then + rm poetry.lock + fi - - name: Install minimum supported version dependencies - if: ${{ inputs.dependencies == 'minimum' }} - shell: bash -l {0} - run: | - wheels=( dist/emsarray-*.whl ) - args=() - if [[ "${{ inputs.strict }}" == "true" ]] ; then args+=('--no-deps') ; fi - - pip install \ - "${args[@]}" \ - -r continuous-integration/requirements-minimum.txt \ - "${wheels[0]}" + poetry install --no-root --extras="${INPUTS_EXTRAS}" --only="main,${INPUTS_GROUPS}" + pip install --no-deps "${wheels[0]}" pip check - pip install \ - -r continuous-integration/requirements-minimum.txt \ - "${wheels[0]}[${{ inputs.extras }}]" - - name: Install latest dependencies - if: ${{ inputs.dependencies == 'latest' }} - shell: bash -l {0} - run: | - wheels=( dist/emsarray-*.whl ) - pip install "${wheels[0]}[${{ inputs.extras }}]" + env: + INPUTS_DEPENDENCIES: ${{ inputs.dependencies }} + INPUTS_EXTRAS: ${{ inputs.extras }} + INPUTS_GROUPS: ${{ inputs.groups }} diff --git a/.github/workflows/ci.yaml b/.github/workflows/ci.yaml index 93e6a9a8..c953fb6c 100644 --- a/.github/workflows/ci.yaml +++ b/.github/workflows/ci.yaml @@ -81,7 +81,6 @@ jobs: python-version: ${{ matrix.python-version }} package-artifact-name: ${{ needs.build.outputs.artifact-name }} dependencies: ${{ matrix.dependencies }} - strict: "true" - run: | echo "MATRIX_TAG=py${MATRIX_PYTHON_VERSION}-${MATRIX_DEPENDENCIES}-deps" >> "$GITHUB_ENV" @@ -164,7 +163,7 @@ jobs: - uses: ./.github/actions/environment with: python-version: ${{ env.python-version }} - extras: docs + groups: docs package-artifact-name: ${{ needs.build.outputs.artifact-name }} - name: Set up cartopy cache directories diff --git a/.readthedocs.yaml b/.readthedocs.yaml index 4ab86c69..1f59d256 100644 --- a/.readthedocs.yaml +++ b/.readthedocs.yaml @@ -4,10 +4,13 @@ build: os: "ubuntu-20.04" tools: python: "mambaforge-4.10" + jobs: + post_install: + - POETRY_VIRTUALENVS_CREATE=false poetry --no-ansi install --with docs --all-extras + +conda: + environment: continuous-integration/docs.yaml sphinx: configuration: "docs/conf.py" builder: "dirhtml" - -conda: - environment: continuous-integration/docs.yaml diff --git a/continuous-integration/docs.yaml b/continuous-integration/docs.yaml index f960bf62..73e04913 100644 --- a/continuous-integration/docs.yaml +++ b/continuous-integration/docs.yaml @@ -6,7 +6,4 @@ dependencies: - udunits2 >=2.2.25 - python =3.14 - ffmpeg - - wheel - - pip: - - -r ./requirements-3.14.txt - - -e ..[docs] + - poetry diff --git a/continuous-integration/environment.yaml b/continuous-integration/environment.yaml index f9baa8d4..968b41d3 100644 --- a/continuous-integration/environment.yaml +++ b/continuous-integration/environment.yaml @@ -4,3 +4,4 @@ channels: dependencies: - geos ~=3.12.2 - udunits2 >=2.2.25 + - poetry ~=2.4.0 diff --git a/continuous-integration/requirements-3.12.txt b/continuous-integration/requirements-3.12.txt deleted file mode 100644 index 6642357f..00000000 --- a/continuous-integration/requirements-3.12.txt +++ /dev/null @@ -1,241 +0,0 @@ -# -# This file is autogenerated by pip-compile with Python 3.12 -# by the following command: -# -# pip-compile --extra=testing --output-file=./continuous-integration/requirements-3.12.txt --unsafe-package=emsarray pyproject.toml -# -bokeh==3.8.2 - # via dask -bottleneck==1.6.0 - # via - # emsarray - # emsarray (pyproject.toml) -cartopy==0.25.0 - # via emsarray -certifi==2026.2.25 - # via - # netcdf4 - # pyproj - # requests -cftime==1.6.5 - # via - # cfunits - # netcdf4 -cfunits==3.3.7 - # via emsarray -charset-normalizer==3.4.4 - # via requests -click==8.3.1 - # via - # dask - # distributed -cloudpickle==3.1.2 - # via - # dask - # distributed -contourpy==1.3.3 - # via - # bokeh - # matplotlib -coverage[toml]==7.13.4 - # via pytest-cov -cycler==0.12.1 - # via matplotlib -dask[array,complete,dataframe,diagnostics,distributed]==2026.1.2 - # via - # distributed - # xarray -distributed==2026.1.2 - # via dask -flake8==7.3.0 - # via emsarray (pyproject.toml) -fonttools==4.61.1 - # via matplotlib -freezegun==1.5.5 - # via emsarray (pyproject.toml) -fsspec==2026.2.0 - # via dask -geojson==3.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -idna==3.11 - # via requests -iniconfig==2.3.0 - # via pytest -isort==8.0.1 - # via emsarray (pyproject.toml) -jinja2==3.1.6 - # via - # bokeh - # dask - # distributed - # pytest-mpl -kiwisolver==1.4.9 - # via matplotlib -librt==0.8.1 - # via mypy -locket==1.0.0 - # via - # distributed - # partd -lz4==4.4.5 - # via dask -markupsafe==3.0.3 - # via jinja2 -matplotlib==3.10.8 - # via - # cartopy - # emsarray - # pytest-mpl -mccabe==0.7.0 - # via flake8 -msgpack==1.1.2 - # via distributed -mypy==1.19.1 - # via emsarray (pyproject.toml) -mypy-extensions==1.1.0 - # via mypy -narwhals==2.17.0 - # via bokeh -netcdf4==1.7.4 - # via - # emsarray - # emsarray (pyproject.toml) -numpy==2.4.2 - # via - # bokeh - # bottleneck - # cartopy - # cftime - # cfunits - # contourpy - # dask - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # netcdf4 - # pandas - # pandas-stubs - # pykdtree - # shapely - # xarray -packaging==26.0 - # via - # bokeh - # cartopy - # cfunits - # dask - # distributed - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # pooch - # pytest - # pytest-mpl - # xarray -pandas==3.0.1 - # via - # bokeh - # dask - # xarray -pandas-stubs==3.0.0.260204 - # via emsarray (pyproject.toml) -partd==1.4.2 - # via dask -pathspec==1.0.4 - # via mypy -pillow==12.1.1 - # via - # bokeh - # matplotlib - # pytest-mpl -platformdirs==4.9.2 - # via pooch -pluggy==1.6.0 - # via - # pytest - # pytest-cov -pooch==1.9.0 - # via emsarray -psutil==7.2.2 - # via distributed -pyarrow==23.0.1 - # via dask -pycodestyle==2.14.0 - # via flake8 -pyflakes==3.4.0 - # via flake8 -pygments==2.19.2 - # via pytest -pykdtree==1.4.3 - # via emsarray -pyparsing==3.3.2 - # via matplotlib -pyproj==3.7.2 - # via cartopy -pyshp==3.0.3 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -pytest==9.0.2 - # via - # emsarray (pyproject.toml) - # pytest-cov - # pytest-mpl -pytest-cov==7.0.0 - # via emsarray (pyproject.toml) -pytest-mpl==0.18.0 - # via emsarray (pyproject.toml) -python-dateutil==2.9.0.post0 - # via - # freezegun - # matplotlib - # pandas -pyyaml==6.0.3 - # via - # bokeh - # dask - # distributed -requests==2.32.5 - # via pooch -shapely==2.1.2 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -six==1.17.0 - # via python-dateutil -sortedcontainers==2.4.0 - # via distributed -tblib==3.2.2 - # via distributed -toolz==1.1.0 - # via - # dask - # distributed - # partd -tornado==6.5.4 - # via - # bokeh - # distributed -types-pytz==2025.2.0.20251108 - # via emsarray (pyproject.toml) -typing-extensions==4.15.0 - # via mypy -urllib3==2.6.3 - # via - # distributed - # requests -xarray[parallel]==2026.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -xyzservices==2025.11.0 - # via bokeh -zict==3.0.0 - # via distributed - -# The following packages are considered to be unsafe in a requirements file: -# emsarray diff --git a/continuous-integration/requirements-3.13.txt b/continuous-integration/requirements-3.13.txt deleted file mode 100644 index a29a4825..00000000 --- a/continuous-integration/requirements-3.13.txt +++ /dev/null @@ -1,241 +0,0 @@ -# -# This file is autogenerated by pip-compile with Python 3.13 -# by the following command: -# -# pip-compile --extra=testing --output-file=./continuous-integration/requirements-3.13.txt --unsafe-package=emsarray pyproject.toml -# -bokeh==3.8.2 - # via dask -bottleneck==1.6.0 - # via - # emsarray - # emsarray (pyproject.toml) -cartopy==0.25.0 - # via emsarray -certifi==2026.2.25 - # via - # netcdf4 - # pyproj - # requests -cftime==1.6.5 - # via - # cfunits - # netcdf4 -cfunits==3.3.7 - # via emsarray -charset-normalizer==3.4.4 - # via requests -click==8.3.1 - # via - # dask - # distributed -cloudpickle==3.1.2 - # via - # dask - # distributed -contourpy==1.3.3 - # via - # bokeh - # matplotlib -coverage[toml]==7.13.4 - # via pytest-cov -cycler==0.12.1 - # via matplotlib -dask[array,complete,dataframe,diagnostics,distributed]==2026.1.2 - # via - # distributed - # xarray -distributed==2026.1.2 - # via dask -flake8==7.3.0 - # via emsarray (pyproject.toml) -fonttools==4.61.1 - # via matplotlib -freezegun==1.5.5 - # via emsarray (pyproject.toml) -fsspec==2026.2.0 - # via dask -geojson==3.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -idna==3.11 - # via requests -iniconfig==2.3.0 - # via pytest -isort==8.0.1 - # via emsarray (pyproject.toml) -jinja2==3.1.6 - # via - # bokeh - # dask - # distributed - # pytest-mpl -kiwisolver==1.4.9 - # via matplotlib -librt==0.8.1 - # via mypy -locket==1.0.0 - # via - # distributed - # partd -lz4==4.4.5 - # via dask -markupsafe==3.0.3 - # via jinja2 -matplotlib==3.10.8 - # via - # cartopy - # emsarray - # pytest-mpl -mccabe==0.7.0 - # via flake8 -msgpack==1.1.2 - # via distributed -mypy==1.19.1 - # via emsarray (pyproject.toml) -mypy-extensions==1.1.0 - # via mypy -narwhals==2.17.0 - # via bokeh -netcdf4==1.7.4 - # via - # emsarray - # emsarray (pyproject.toml) -numpy==2.4.2 - # via - # bokeh - # bottleneck - # cartopy - # cftime - # cfunits - # contourpy - # dask - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # netcdf4 - # pandas - # pandas-stubs - # pykdtree - # shapely - # xarray -packaging==26.0 - # via - # bokeh - # cartopy - # cfunits - # dask - # distributed - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # pooch - # pytest - # pytest-mpl - # xarray -pandas==3.0.1 - # via - # bokeh - # dask - # xarray -pandas-stubs==3.0.0.260204 - # via emsarray (pyproject.toml) -partd==1.4.2 - # via dask -pathspec==1.0.4 - # via mypy -pillow==12.1.1 - # via - # bokeh - # matplotlib - # pytest-mpl -platformdirs==4.9.2 - # via pooch -pluggy==1.6.0 - # via - # pytest - # pytest-cov -pooch==1.9.0 - # via emsarray -psutil==7.2.2 - # via distributed -pyarrow==23.0.1 - # via dask -pycodestyle==2.14.0 - # via flake8 -pyflakes==3.4.0 - # via flake8 -pygments==2.19.2 - # via pytest -pykdtree==1.4.3 - # via emsarray -pyparsing==3.3.2 - # via matplotlib -pyproj==3.7.2 - # via cartopy -pyshp==3.0.3 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -pytest==9.0.2 - # via - # emsarray (pyproject.toml) - # pytest-cov - # pytest-mpl -pytest-cov==7.0.0 - # via emsarray (pyproject.toml) -pytest-mpl==0.18.0 - # via emsarray (pyproject.toml) -python-dateutil==2.9.0.post0 - # via - # freezegun - # matplotlib - # pandas -pyyaml==6.0.3 - # via - # bokeh - # dask - # distributed -requests==2.32.5 - # via pooch -shapely==2.1.2 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -six==1.17.0 - # via python-dateutil -sortedcontainers==2.4.0 - # via distributed -tblib==3.2.2 - # via distributed -toolz==1.1.0 - # via - # dask - # distributed - # partd -tornado==6.5.4 - # via - # bokeh - # distributed -types-pytz==2025.2.0.20251108 - # via emsarray (pyproject.toml) -typing-extensions==4.15.0 - # via mypy -urllib3==2.6.3 - # via - # distributed - # requests -xarray[parallel]==2026.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -xyzservices==2025.11.0 - # via bokeh -zict==3.0.0 - # via distributed - -# The following packages are considered to be unsafe in a requirements file: -# emsarray diff --git a/continuous-integration/requirements-3.14.txt b/continuous-integration/requirements-3.14.txt deleted file mode 100644 index 94832990..00000000 --- a/continuous-integration/requirements-3.14.txt +++ /dev/null @@ -1,241 +0,0 @@ -# -# This file is autogenerated by pip-compile with Python 3.14 -# by the following command: -# -# pip-compile --extra=testing --output-file=./continuous-integration/requirements-3.14.txt --unsafe-package=emsarray pyproject.toml -# -bokeh==3.8.2 - # via dask -bottleneck==1.6.0 - # via - # emsarray - # emsarray (pyproject.toml) -cartopy==0.25.0 - # via emsarray -certifi==2026.2.25 - # via - # netcdf4 - # pyproj - # requests -cftime==1.6.5 - # via - # cfunits - # netcdf4 -cfunits==3.3.7 - # via emsarray -charset-normalizer==3.4.4 - # via requests -click==8.3.1 - # via - # dask - # distributed -cloudpickle==3.1.2 - # via - # dask - # distributed -contourpy==1.3.3 - # via - # bokeh - # matplotlib -coverage[toml]==7.13.4 - # via pytest-cov -cycler==0.12.1 - # via matplotlib -dask[array,complete,dataframe,diagnostics,distributed]==2026.1.2 - # via - # distributed - # xarray -distributed==2026.1.2 - # via dask -flake8==7.3.0 - # via emsarray (pyproject.toml) -fonttools==4.61.1 - # via matplotlib -freezegun==1.5.5 - # via emsarray (pyproject.toml) -fsspec==2026.2.0 - # via dask -geojson==3.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -idna==3.11 - # via requests -iniconfig==2.3.0 - # via pytest -isort==8.0.1 - # via emsarray (pyproject.toml) -jinja2==3.1.6 - # via - # bokeh - # dask - # distributed - # pytest-mpl -kiwisolver==1.4.9 - # via matplotlib -librt==0.8.1 - # via mypy -locket==1.0.0 - # via - # distributed - # partd -lz4==4.4.5 - # via dask -markupsafe==3.0.3 - # via jinja2 -matplotlib==3.10.8 - # via - # cartopy - # emsarray - # pytest-mpl -mccabe==0.7.0 - # via flake8 -msgpack==1.1.2 - # via distributed -mypy==1.19.1 - # via emsarray (pyproject.toml) -mypy-extensions==1.1.0 - # via mypy -narwhals==2.17.0 - # via bokeh -netcdf4==1.7.4 - # via - # emsarray - # emsarray (pyproject.toml) -numpy==2.4.2 - # via - # bokeh - # bottleneck - # cartopy - # cftime - # cfunits - # contourpy - # dask - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # netcdf4 - # pandas - # pandas-stubs - # pykdtree - # shapely - # xarray -packaging==26.0 - # via - # bokeh - # cartopy - # cfunits - # dask - # distributed - # emsarray - # emsarray (pyproject.toml) - # matplotlib - # pooch - # pytest - # pytest-mpl - # xarray -pandas==3.0.1 - # via - # bokeh - # dask - # xarray -pandas-stubs==3.0.0.260204 - # via emsarray (pyproject.toml) -partd==1.4.2 - # via dask -pathspec==1.0.4 - # via mypy -pillow==12.1.1 - # via - # bokeh - # matplotlib - # pytest-mpl -platformdirs==4.9.2 - # via pooch -pluggy==1.6.0 - # via - # pytest - # pytest-cov -pooch==1.9.0 - # via emsarray -psutil==7.2.2 - # via distributed -pyarrow==23.0.1 - # via dask -pycodestyle==2.14.0 - # via flake8 -pyflakes==3.4.0 - # via flake8 -pygments==2.19.2 - # via pytest -pykdtree==1.4.3 - # via emsarray -pyparsing==3.3.2 - # via matplotlib -pyproj==3.7.2 - # via cartopy -pyshp==3.0.3 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -pytest==9.0.2 - # via - # emsarray (pyproject.toml) - # pytest-cov - # pytest-mpl -pytest-cov==7.0.0 - # via emsarray (pyproject.toml) -pytest-mpl==0.18.0 - # via emsarray (pyproject.toml) -python-dateutil==2.9.0.post0 - # via - # freezegun - # matplotlib - # pandas -pyyaml==6.0.3 - # via - # bokeh - # dask - # distributed -requests==2.32.5 - # via pooch -shapely==2.1.2 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -six==1.17.0 - # via python-dateutil -sortedcontainers==2.4.0 - # via distributed -tblib==3.2.2 - # via distributed -toolz==1.1.0 - # via - # dask - # distributed - # partd -tornado==6.5.4 - # via - # bokeh - # distributed -types-pytz==2025.2.0.20251108 - # via emsarray (pyproject.toml) -typing-extensions==4.15.0 - # via mypy -urllib3==2.6.3 - # via - # distributed - # requests -xarray[parallel]==2026.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -xyzservices==2025.11.0 - # via bokeh -zict==3.0.0 - # via distributed - -# The following packages are considered to be unsafe in a requirements file: -# emsarray diff --git a/continuous-integration/requirements-minimum.txt b/continuous-integration/requirements-minimum.txt deleted file mode 100644 index fcf16690..00000000 --- a/continuous-integration/requirements-minimum.txt +++ /dev/null @@ -1,190 +0,0 @@ -# -# This file is autogenerated by pip-compile with Python 3.12 -# by the following command: -# -# pip-compile --extra=complete --output-file=./continuous-integration/requirements-minimum.txt --strip-extras --unsafe-package=certifi --unsafe-package=emsarray --unsafe-package=pytz --unsafe-package=tzdata pyproject.toml -# -bokeh~=3.7.3 - # via dask -bottleneck~=1.4.2 - # via - # emsarray - # emsarray (pyproject.toml) -cartopy~=0.24.1 - # via emsarray -cftime~=1.6.5 - # via - # cfunits - # netcdf4 -cfunits~=3.3.7 - # via emsarray -charset-normalizer~=3.4.4 - # via requests -click~=8.1.8 - # via - # dask - # distributed -cloudpickle~=3.1.2 - # via - # dask - # distributed -contourpy~=1.3.3 - # via - # bokeh - # matplotlib -cycler~=0.12.1 - # via matplotlib -dask~=2025.2.0 - # via - # distributed - # xarray -distributed~=2025.2.0 - # via dask -fonttools~=4.56.0 - # via matplotlib -fsspec~=2025.2.0 - # via dask -geojson~=3.2.0 - # via - # emsarray - # emsarray (pyproject.toml) -idna~=3.11 - # via requests -jinja2~=3.1.6 - # via - # bokeh - # dask - # distributed -kiwisolver~=1.4.9 - # via matplotlib -locket~=1.0.0 - # via - # distributed - # partd -lz4~=4.4.5 - # via dask -markupsafe~=3.0.3 - # via jinja2 -matplotlib~=3.10.8 - # via - # cartopy - # emsarray -msgpack~=1.1.2 - # via distributed -narwhals~=1.28.0 - # via bokeh -netcdf4~=1.7.4 - 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# via pooch -shapely~=2.0.7 - # via - # cartopy - # emsarray - # emsarray (pyproject.toml) -six~=1.17.0 - # via python-dateutil -sortedcontainers~=2.4.0 - # via distributed -tblib~=3.0.0 - # via distributed -toolz~=1.0.0 - # via - # dask - # distributed - # partd -tornado~=6.4.2 - # via - # bokeh - # distributed -urllib3~=2.3.0 - # via - # distributed - # requests -xarray~=2025.1.2 - # via - # emsarray - # emsarray (pyproject.toml) -xyzservices~=2025.1.0 - # via bokeh -zict~=3.0.0 - # via distributed - -# The following packages are considered to be unsafe in a requirements file: -# certifi -# emsarray -# pytz -# tzdata -tzdata -pytz -certifi diff --git a/docs/getting-started/installing.rst b/docs/getting-started/installing.rst index f7c4211f..6c438df0 100644 --- a/docs/getting-started/installing.rst +++ b/docs/getting-started/installing.rst @@ -42,7 +42,7 @@ that must be installed using some other method. `cartopy `_. This is used for plotting * ``udunits2``, via -* `cfunits `. +* `cfunits `_. This is used for plotting. These can be installed via your package manager or via ``conda``. @@ -68,15 +68,14 @@ or Python crashing when calling ``cartopy`` functions. Building ======== -On any computer, run the following commands from the root of the ``emsarray`` source directory to build a package: +``emsarray`` uses `poetry `_ for building and dependency management. +To build ``emsarray`` first `install poetry `_. +Then run: .. code-block:: shell-session - $ python3 -m venv venv - $ source venv/bin/activate - $ pip3 install --upgrade pip build - $ rm -rf dist/ - $ python3 -m build + $ cd /path/to/emsarray + $ poetry build Two new files will be created in the ``dist/`` directory. This is the Python package you can install in other environments. diff --git a/docs/releases/development.rst b/docs/releases/development.rst index 02a961b2..c94bc215 100644 --- a/docs/releases/development.rst +++ b/docs/releases/development.rst @@ -39,3 +39,5 @@ Next release (in development) (:pr:`225`, :pr:`SciTools/cartopy#2659`). * Silence all warnings in CI (:pr:`227`). +* Manage dependencies, lock files, and installing in CI using poetry + (:pr:`228`). diff --git a/poetry.lock b/poetry.lock new file mode 100644 index 00000000..276b521f --- /dev/null +++ b/poetry.lock @@ -0,0 +1,3234 @@ +# This file is automatically @generated by Poetry 2.4.1 and should not be changed by hand. + +[[package]] +name = "accessible-pygments" +version = "0.0.5" +description = "A collection of accessible pygments styles" +optional = false +python-versions = ">=3.9" +groups = ["docs"] +files = [ + {file = "accessible_pygments-0.0.5-py3-none-any.whl", hash = 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b/pyproject.toml index 4d37300c..75c82fac 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,8 +1,6 @@ [build-system] -requires = [ - "setuptools >= 35.0.2", -] -build-backend = "setuptools.build_meta" +requires = ["poetry-core>=2.0.0,<3.0.0"] +build-backend = "poetry.core.masonry.api" [project] name = "emsarray" @@ -11,6 +9,7 @@ description = "xarray extension that supports multiple geometry conventions" authors = [ {name = "Coastal Environmental Modelling team, Oceans and Atmosphere, CSIRO", email = "coasts@csiro.au"}, ] +readme = "README.md" license = "BSD-3-Clause" license-files = ["LICENSE"] requires-python = ">=3.12" @@ -32,24 +31,37 @@ Documentation = "https://emsarray.readthedocs.io/" "Release notes" = "https://emsarray.readthedocs.io/en/stable/releases/1.0.0a1/" Source = "https://github.com/csiro-coasts/emsarray/" +[tool.poetry.dependencies] +cartopy = { version = ">=0.22", optional = true } +matplotlib = { version = ">=3.8", optional = true } +pykdtree = { version = ">=1.3", optional = true } +cfunits = { version = ">= 3.3", optional = true } +pooch = { version = ">=1.8", optional = true } + [project.optional-dependencies] plot = [ - "cartopy >=0.22", - "matplotlib >=3.8", - "pykdtree >=1.3", - "cfunits >= 3.3", + "cartopy", + "matplotlib", + "pykdtree", + "cfunits", ] tutorial = [ - "pooch >=1.8", + "pooch", ] +# This should be the union of all optional dependencies. +# pip allows you to do "emsarray[plot,tutorial]" but poetry does not. complete = [ - "emsarray[plot,tutorial]", + "cartopy", + "matplotlib", + "pykdtree", + "cfunits", + "pooch", ] +[dependency-groups] docs = [ - "emsarray[complete]", "sphinx ~=8.2.3", "sphinx_book_theme ~=1.1.4", "sphinxcontrib-video ~=0.4.1", @@ -58,7 +70,6 @@ docs = [ ] testing = [ - "emsarray[complete]", "pytest", "pytest-cov", "pytest-mpl", @@ -70,6 +81,9 @@ testing = [ "freezegun", ] +[tool.poetry.group.docs] +optional = true + [project.scripts] emsarray = "emsarray.cli:main" @@ -82,14 +96,7 @@ ShocStandard = "emsarray.conventions.shoc:ShocStandard" UGrid = "emsarray.conventions.ugrid:UGrid" # emsarray.conventions end - marker used by docs -[tool.setuptools.dynamic] -readme = {file = ["README.md"], content-type = "text/markdown"} - -[tool.setuptools.packages.find] -where = ["src"] - -[tool.setuptools.package-data] -mypkg = ["py.typed"] +[tool.poetry] [tool.pytest.ini_options] testpaths = ["tests"] diff --git a/scripts/min_deps_check.py b/scripts/min_deps_check.py deleted file mode 100755 index 6c2a4d5e..00000000 --- a/scripts/min_deps_check.py +++ /dev/null @@ -1,309 +0,0 @@ -#!/usr/bin/env python -""" -Fetch from PyPI all available versions of the emsarray dependencies and their -publication date. Compare it against continuous-integration/requirements-minimum.txt -to verify the policy on obsolete dependencies is being followed. -Update the pinned dependencies using `pip-compile`. - -Based heavily on `min_deps_check.py` from xarray -but rewritten to pull requirements from a Python requirements.txt and available versions from PyPI. - -Needs the following extra deps installed: - - $ pip3 install packaging requests python-dateutil pip-tools - -This is automatically run as part of the `scripts/update_pinned_dependencies.sh` script. - -See also -======== -https://github.com/pydata/xarray/blob/v2024.06.0/ci/min_deps_check.py -""" -import dataclasses -import datetime -import enum -import itertools -import subprocess -import sys -from collections.abc import Iterator - -import packaging.requirements -import packaging.version -import requests -from dateutil.relativedelta import relativedelta - - -class VersionStatus(enum.StrEnum): - older = '<' - current = '~=' - newer = '>' - - -@dataclasses.dataclass -class Dependency: - package_name: str - requirements_version: packaging.version.Version - requirements_date: datetime.date | None - policy_version: packaging.version.Version - policy_date: datetime.date | None - status: VersionStatus - - -IGNORE_DEPS: set[str] = { - 'certifi', - 'pytz', - 'tzdata', -} - -POLICY_MONTHS = {"numpy": 18} -POLICY_MONTHS_DEFAULT = 12 -POLICY_OVERRIDE: dict[str, packaging.specifiers.Specifier] = {} -errors: list[str] = [] - - -UTC_NOW = datetime.datetime.now(datetime.UTC) - - -def error(msg: str) -> None: - global errors - errors.append(msg) - - -def warning(msg: str) -> None: - print("WARNING:", msg) - - -def parse_requirements( - filename: str -) -> Iterator[tuple[str, packaging.specifiers.Specifier, packaging.version.Version]]: - """ - Parse a requirements file, yield (package name, specifier, version) for each requirement. - """ - for line_number, line in enumerate(open(filename), start=1): - if '#' in line: - line = line[:line.index('#')] - line = line.strip() - if not line: - continue - - requirement = packaging.requirements.Requirement(line) - if requirement.name in IGNORE_DEPS: - continue - - if len(requirement.specifier) != 1: - error(f"Dependency on line {line_number} not in expected format: {line}") - continue - specifier = next(iter(requirement.specifier)) - - version = packaging.version.parse(specifier.version) - if version.micro is None: - warning( - f"Dependency {requirement.name} does not specify a patch version. " - f"Update dependency to `{version}.0`." - ) - - yield requirement.name, specifier, version - - -def zero_patch(version: packaging.version.Version) -> packaging.version.Version: - return packaging.version.parse(f'{version.major}.{version.minor}.0') - - -def query_pypi(pkg: str) -> dict[packaging.version.Version, datetime.datetime]: - """Query the conda repository for a specific package - - Return map of {version: publication date} - """ - response = requests.get(f'https://pypi.org/pypi/{pkg}/json').json() - all_release_dates = { - packaging.version.parse(key): min( - datetime.datetime.fromisoformat(entry['upload_time_iso_8601']) - for entry in entries - ) - for key, entries in response['releases'].items() - if len(entries) > 0 - } - - return all_release_dates - - -def process_pkg( - pkg: str, - specifier: packaging.specifiers.Specifier, - version: packaging.version.Version, -) -> Dependency: - """Compare package version from requirements file to available versions in conda. - Return row to build pandas dataframe: - - - package name - - major.minor.[patch] version in requirements file - - publication date of version in requirements file (YYYY-MM-DD) - - major.minor version suggested by policy - - publication date of version suggested by policy (YYYY-MM-DD) - - status ("<", "=", "> (!)") - """ - release_dates = query_pypi(pkg) - - # Find when this version was published - try: - req_published = release_dates[version] - except KeyError: - error(f"not found in pypi: {pkg}=={version}") - req_published = None - - policy_months = POLICY_MONTHS.get(pkg, POLICY_MONTHS_DEFAULT) - - if pkg in POLICY_OVERRIDE: - policy_specifier = POLICY_OVERRIDE[pkg] - else: - # Find the newest minor version with a release before the policy cut off date - policy_published = UTC_NOW - relativedelta(months=policy_months) - filtered_versions = [ - version - for version, published in release_dates.items() - if published < policy_published - ] - max_policy_version = zero_patch(max(filtered_versions, default=version)) - policy_specifier = packaging.specifiers.Specifier(f'~={max_policy_version}') - - policy_version = packaging.version.parse(policy_specifier.version) - - # Find the release date of the policy version - policy_date = min( - ( - release_date - for release_version, release_date - in release_dates.items() - if release_version in policy_specifier - ), default=None - ) - - if version in policy_specifier: - status = VersionStatus.current - else: - if version < policy_version: - status = VersionStatus.older - warning( - f"Requirement {pkg} {version} was published on {req_published:%Y-%m-%d} " - f"which is older than the required {policy_months} months of support. " - f"Minimum policy supported version is {pkg}{policy_specifier}." - ) - elif version > policy_version: - status = VersionStatus.newer - if req_published is None: - error( - f"Package version is newer than policy version. " - f"Policy wants {policy_specifier} " - f"(at least {policy_months} moths old). " - f"Could not determine age of {version}." - ) - else: - delta = relativedelta(UTC_NOW, req_published).normalized() - n_months = delta.years * 12 + delta.months - error( - f"Package is too new: {pkg} {version} was " - f"published on {req_published:%Y-%m-%d} " - f"which was {n_months} months ago (policy is {policy_months} months). " - f"Update requirement to {pkg}{policy_specifier}." - ) - - return Dependency( - package_name=pkg, - requirements_version=version, - requirements_date=req_published, - policy_version=policy_version, - policy_date=policy_date, - status=status, - ) - - -def main() -> None: - if len(sys.argv) < 2: - print(f"Usage: {sys.argv[0]} continuous-integration/requirements-minimum.txt") - sys.exit(1) - - requirements_file = sys.argv[1] - dependencies = [ - process_pkg(pkg, specifier, version) - for pkg, specifier, version in parse_requirements(requirements_file) - ] - - print() - print("Package Required Status Policy ") - print("-------------------- ----------------------- ------ -----------------------") - fmt = "{0:20} {1:10} ({2:10}) {5:^6} {3:10} ({4:10})" - for d in dependencies: - requirements_date = ( - d.requirements_date.strftime("%Y-%m-%d") - if d.requirements_date is not None - else "-" - ) - policy_date = ( - d.policy_date.strftime("%Y-%m-%d") - if d.policy_date is not None - else "-" - ) - print( - f"{d.package_name:20} {d.requirements_version!s:10} ({requirements_date:10}) " - f"{d.status:^6} {d.policy_version!s:10} ({policy_date:10})" - ) - - # These packages need upgrading - upgrade_args = list(itertools.chain.from_iterable( - ['--upgrade-package', f'{d.package_name}~={d.policy_version}'] - for d in dependencies - if d.status is VersionStatus.older - )) - - # These packages should be kept where they are - maintain_args = list(itertools.chain.from_iterable( - ['--upgrade-package', f'{d.package_name}~={d.requirements_version}'] - for d in dependencies - if d.status in {VersionStatus.current, VersionStatus.newer} - )) - # These packages should be installed fresh every time, so ignore them for now. - ignored_args = list(itertools.chain.from_iterable( - ['--unsafe-package', ignored] - for ignored in IGNORE_DEPS - )) - cmd = [ - 'pip-compile', - '--quiet', - '--extra', 'complete', - '--strip-extras', - '--unsafe-package', 'emsarray', - '--no-allow-unsafe', - # '--no-header', - # '--no-annotate', - '--output-file', requirements_file, - ] + upgrade_args + maintain_args + ignored_args + [ - 'pyproject.toml', - ] - - # pip-compile always prints '==' specifiers, - # but we want the latest point release in the minimum policy version. - subprocess.check_call(cmd) - cmd = [ - 'sed', - '-i', - 's/==/~=/', - requirements_file, - ] - subprocess.check_call(cmd) - - # CI will install strictly the requirements present in this file and none more, - # so append the ignored deps at the end with no version specifiers. - with open(requirements_file, "a") as f: - for ignored in IGNORE_DEPS: - f.write(ignored) - f.write("\n") - - if errors: - print("\nErrors:") - print("-------") - for i, e in enumerate(errors, start=1): - print(f"{i}. {e}") - sys.exit(1) - - -if __name__ == "__main__": - main() diff --git a/scripts/update_pinned_dependencies.sh b/scripts/update_pinned_dependencies.sh deleted file mode 100755 index 7d417095..00000000 --- a/scripts/update_pinned_dependencies.sh +++ /dev/null @@ -1,65 +0,0 @@ -#!/bin/bash - -set -e - -PYTHON_VERSIONS=('3.12' '3.13' '3.14') -HERE="$( cd -- "$( realpath -- "$( dirname -- "$0" )" )" && pwd )" -PROJECT_ROOT="$( dirname "$HERE" )" - -PIP_TOOLS='pip-tools!=7.5.0' - -cd "$PROJECT_ROOT" - -conda_venv_root=$( mktemp -d emsarray-conda-environments.XXXXXXX ) -echo "Working in ${conda_venv_root}" - -version="${PYTHON_VERSIONS[0]}" -requirements_file="./continuous-integration/requirements-minimum.txt" -echo "Updating $requirements_file" -conda_prefix="${conda_venv_root}/py-min" -conda create \ - --yes --quiet \ - --prefix="${conda_prefix}" \ - --no-default-packages -conda install \ - --yes \ - --prefix="${conda_prefix}" \ - --channel conda-forge \ - "python=${version}" pip -conda run \ - --prefix="${conda_prefix}" \ - pip install "$PIP_TOOLS" packaging requests python-dateutil -conda run \ - --prefix="${conda_prefix}" \ - python3 ./scripts/min_deps_check.py "$requirements_file" -conda env remove --yes --prefix="${conda_prefix}" - -for version in "${PYTHON_VERSIONS[@]}" ; do - requirements_file="./continuous-integration/requirements-${version}.txt" - echo "Updating $requirements_file" - - conda_prefix="${conda_venv_root}/py${version}" - conda create \ - --yes --quiet \ - --prefix="${conda_prefix}" \ - --no-default-packages - conda install \ - --yes \ - --prefix="${conda_prefix}" \ - --channel conda-forge \ - "python=${version}" \ - "$PIP_TOOLS" - conda run \ - --prefix="${conda_prefix}" \ - pip-compile \ - --upgrade \ - --extra="testing" \ - --output-file="${requirements_file}" \ - --unsafe-package emsarray \ - --no-allow-unsafe \ - pyproject.toml - conda env remove --yes --prefix="${conda_prefix}" -done - - -echo rm -rf "$conda_venv_root"