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fix a bug in tile_processing procedure; change default b_c2 to True #173

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fix a bug in tile_processing procedure; change default b_c2 to True

fix a bug in tile_processing procedure; change default b_c2 to True #173

Workflow file for this run

.github/workflows/tests.yml at 56b2016
# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
# Based on ~/code/xcookie/xcookie/rc/tests.yml.in
# Now based on ~/code/xcookie/xcookie/builders/github_actions.py
# See: https://github.com/Erotemic/xcookie
name: BinPyCI
on:
push:
pull_request:
branches: [ devel, main ]
jobs:
lint_job:
##
# Run quick linting and typing checks.
# To disable all linting add "linter=false" to the xcookie config.
# To disable type checks add "notypes" to the xcookie tags.
##
runs-on: ubuntu-latest
steps:
- name: Checkout source
uses: actions/checkout@v3
- name: Set up Python 3.11 for linting
uses: actions/setup-python@v4.6.1
with:
python-version: '3.11'
- name: Install dependencies
run: |-
python -m pip install --upgrade pip
python -m pip install flake8
- name: Lint with flake8
run: |-
# stop the build if there are Python syntax errors or undefined names
flake8 ./src/python/pycold --count --select=E9,F63,F7,F82 --show-source --statistics
- name: Typecheck with mypy
run: |-
python -m pip install mypy
mypy --install-types --non-interactive ./src/python/pycold
mypy ./src/python/pycold
build_and_test_sdist:
##
# Build the binary package from source and test it in the same
# environment.
##
name: Build sdist
runs-on: ubuntu-latest
steps:
- name: Checkout source
uses: actions/checkout@v3
- name: Set up Python 3.11
uses: actions/setup-python@v4.6.1
with:
python-version: '3.11'
- name: Upgrade pip
run: |-
python -m pip install --upgrade pip
python -m pip install --prefer-binary -r requirements/tests.txt
python -m pip install --prefer-binary -r requirements/runtime.txt
python -m pip install --prefer-binary -r requirements/headless.txt
python -m pip install --prefer-binary -r requirements/gdal.txt
- name: Build sdist
shell: bash
run: |-
python -m pip install pip -U
python -m pip install setuptools>=0.8 wheel build
python -m build --sdist --outdir wheelhouse
- name: Install sdist
run: |-
ls -al ./wheelhouse
pip install --prefer-binary wheelhouse/pycold*.tar.gz -v
- name: Test minimal loose sdist
run: |-
pwd
ls -al
# Run in a sandboxed directory
WORKSPACE_DNAME="testsrcdir_minimal_${CI_PYTHON_VERSION}_${GITHUB_RUN_ID}_${RUNNER_OS}"
mkdir -p $WORKSPACE_DNAME
cd $WORKSPACE_DNAME
# Run the tests
# Get path to installed package
MOD_DPATH=$(python -c "import pycold, os; print(os.path.dirname(pycold.__file__))")
echo "MOD_DPATH = $MOD_DPATH"
python -m pytest --verbose --cov={self.mod_name} $MOD_DPATH ../tests
cd ..
- name: Test full loose sdist
run: |-
pwd
ls -al
python -m pip install --prefer-binary -r requirements/headless.txt
# Run in a sandboxed directory
WORKSPACE_DNAME="testsrcdir_full_${CI_PYTHON_VERSION}_${GITHUB_RUN_ID}_${RUNNER_OS}"
mkdir -p $WORKSPACE_DNAME
cd $WORKSPACE_DNAME
# Run the tests
# Get path to installed package
MOD_DPATH=$(python -c "import pycold, os; print(os.path.dirname(pycold.__file__))")
echo "MOD_DPATH = $MOD_DPATH"
python -m pytest --verbose --cov={self.mod_name} $MOD_DPATH ../tests
cd ..
- name: Upload sdist artifact
uses: actions/upload-artifact@v3
with:
name: wheels
path: ./wheelhouse/*.tar.gz
build_binpy_wheels:
##
# Build the binary wheels. Note: even though cibuildwheel will test
# them internally here, we will test them independently later in the
# test_binpy_wheels step.
##
name: ${{ matrix.os }}, arch=${{ matrix.arch }}
runs-on: ${{ matrix.os }}
strategy:
matrix:
# Normally, xcookie generates explicit lists of platforms to build / test
# on, but in this case cibuildwheel does that for us, so we need to just
# set the environment variables for cibuildwheel. These are parsed out of
# the standard [tool.cibuildwheel] section in pyproject.toml and set
# explicitly here.
os:
- ubuntu-latest
cibw_skip:
- '*-win32 *-musllinux_* *i686 pp*'
arch:
- auto
steps:
- name: Checkout source
uses: actions/checkout@v3
- name: Set up QEMU
uses: docker/setup-qemu-action@v2
if: runner.os == 'Linux' && matrix.arch != 'auto'
with:
platforms: all
- name: Build binary wheels
uses: pypa/cibuildwheel@v2.13.1
with:
output-dir: wheelhouse
config-file: pyproject.toml
env:
CIBW_SKIP: ${{ matrix.cibw_skip }}
CIBW_ARCHS_LINUX: ${{ matrix.arch }}
- name: Show built files
shell: bash
run: ls -la wheelhouse
- name: Set up Python 3.11 to combine coverage
uses: actions/setup-python@v4.6.1
if: runner.os == 'Linux'
with:
python-version: '3.11'
- name: Combine coverage Linux
if: runner.os == 'Linux'
run: |-
echo '############ PWD'
pwd
cp .wheelhouse/.coverage* . || true
ls -al
python -m pip install coverage[toml]
echo '############ combine'
coverage combine . || true
echo '############ XML'
coverage xml -o ./coverage.xml || true
echo '### The cwd should now have a coverage.xml'
ls -altr
pwd
- uses: codecov/codecov-action@v3
name: Codecov Upload
with:
file: ./coverage.xml
- uses: actions/upload-artifact@v3
name: Upload wheels artifact
with:
name: wheels
path: ./wheelhouse/pycold*.whl
test_binpy_wheels:
##
# Download the previously build binary wheels from the
# build_binpy_wheels step, and test them in an independent
# environment.
##
name: ${{ matrix.python-version }} on ${{ matrix.os }}, arch=${{ matrix.arch }} with ${{ matrix.install-extras }}
runs-on: ${{ matrix.os }}
needs:
- build_binpy_wheels
strategy:
matrix:
# Xcookie generates an explicit list of environments that will be used
# for testing instead of using the more concise matrix notation.
include:
- python-version: '3.8'
install-extras: tests-strict,runtime-strict,headless-strict
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal-strict.txt
- python-version: '3.11'
install-extras: tests-strict,runtime-strict,optional-strict,headless-strict
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal-strict.txt
- python-version: '3.8'
install-extras: tests,optional,headless
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal.txt
- python-version: '3.9'
install-extras: tests,optional,headless
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal.txt
- python-version: '3.10'
install-extras: tests,optional,headless
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal.txt
- python-version: '3.11'
install-extras: tests,optional,headless
os: ubuntu-latest
arch: auto
gdal-requirement-txt: requirements/gdal.txt
steps:
- name: Checkout source
uses: actions/checkout@v3
- name: Set up QEMU
uses: docker/setup-qemu-action@v2
if: runner.os == 'Linux' && matrix.arch != 'auto'
with:
platforms: all
- name: Setup Python
uses: actions/setup-python@v4.6.1
with:
python-version: ${{ matrix.python-version }}
- uses: actions/download-artifact@v3
name: Download wheels
with:
name: wheels
path: wheelhouse
- name: Install wheel ${{ matrix.install-extras }}
shell: bash
env:
INSTALL_EXTRAS: ${{ matrix.install-extras }}
GDAL_REQUIREMENT_TXT: ${{ matrix.gdal-requirement-txt }}
run: |-
echo "Finding the path to the wheel"
ls wheelhouse || echo "wheelhouse does not exist"
echo "Installing helpers"
pip install setuptools>=0.8 setuptools_scm wheel build -U
pip install tomli pkginfo
export WHEEL_FPATH=$(python -c "import pathlib; print(str(sorted(pathlib.Path('wheelhouse').glob('pycold*.whl'))[-1]).replace(chr(92), chr(47)))")
export MOD_VERSION=$(python -c "from pkginfo import Wheel; print(Wheel('$WHEEL_FPATH').version)")
pip install -r "$GDAL_REQUIREMENT_TXT"
pip install --prefer-binary "pycold[$INSTALL_EXTRAS]==$MOD_VERSION" -f wheelhouse
echo "Install finished."
- name: Test wheel ${{ matrix.install-extras }}
shell: bash
env:
CI_PYTHON_VERSION: py${{ matrix.python-version }}
run: |-
echo "Creating test sandbox directory"
export WORKSPACE_DNAME="testdir_${CI_PYTHON_VERSION}_${GITHUB_RUN_ID}_${RUNNER_OS}"
echo "WORKSPACE_DNAME=$WORKSPACE_DNAME"
mkdir -p $WORKSPACE_DNAME
echo "cd-ing into the workspace"
cd $WORKSPACE_DNAME
pwd
ls -altr
# Get the path to the installed package and run the tests
export MOD_DPATH=$(python -c "import pycold, os; print(os.path.dirname(pycold.__file__))")
echo "
---
MOD_DPATH = $MOD_DPATH
---
running the pytest command inside the workspace
---
"
python -m pytest --verbose -p pytester -p no:doctest --xdoctest --cov-config ../pyproject.toml --cov-report term --cov="pycold" "$MOD_DPATH" ../tests
echo "pytest command finished, moving the coverage file to the repo root"
ls -al
# Move coverage file to a new name
mv .coverage "../.coverage.$WORKSPACE_DNAME"
echo "changing directory back to th repo root"
cd ..
ls -al
- name: Combine coverage Linux
if: runner.os == 'Linux'
run: |-
echo '############ PWD'
pwd
cp .wheelhouse/.coverage* . || true
ls -al
python -m pip install coverage[toml]
echo '############ combine'
coverage combine . || true
echo '############ XML'
coverage xml -o ./coverage.xml || true
echo '### The cwd should now have a coverage.xml'
ls -altr
pwd
- uses: codecov/codecov-action@v3
name: Codecov Upload
with:
file: ./coverage.xml
test_deploy:
name: Uploading Test to PyPi
runs-on: ubuntu-latest
if: github.event_name == 'push' && ! startsWith(github.event.ref, 'refs/tags') && ! startsWith(github.event.ref, 'refs/heads/release')
needs:
- build_and_test_sdist
- build_binpy_wheels
- test_binpy_wheels
steps:
- name: Checkout source
uses: actions/checkout@v3
- uses: actions/download-artifact@v3
name: Download wheels and sdist
with:
name: wheels
path: wheelhouse
- name: Show files to upload
shell: bash
run: ls -la wheelhouse
- name: Publish
env:
TWINE_REPOSITORY_URL: https://test.pypi.org/legacy/
TWINE_USERNAME: __user__
TWINE_PASSWORD: ${{ secrets.PYPY_TEST }}
run: |-
pip install urllib3 requests[security] twine -U
twine upload --username __token__ --password "$TWINE_PASSWORD" --repository-url "$TWINE_REPOSITORY_URL" wheelhouse/* --skip-existing --verbose || { echo "failed to twine upload" ; exit 1; }
live_deploy:
name: Uploading Live to PyPi
runs-on: ubuntu-latest
if: github.event_name == 'push' && (startsWith(github.event.ref, 'refs/tags') || startsWith(github.event.ref, 'refs/heads/release'))
needs:
- build_and_test_sdist
- build_binpy_wheels
- test_binpy_wheels
steps:
- name: Checkout source
uses: actions/checkout@v3
- uses: actions/download-artifact@v3
name: Download wheels and sdist
with:
name: wheels
path: wheelhouse
- name: Show files to upload
shell: bash
run: ls -la wheelhouse
- name: Publish
env:
TWINE_REPOSITORY_URL: https://upload.pypi.org/legacy/
TWINE_USERNAME: __user__
TWINE_PASSWORD: ${{ secrets.PYPI }}
run: |-
pip install urllib3 requests[security] twine -U
twine upload --username __token__ --password "$TWINE_PASSWORD" --repository-url "$TWINE_REPOSITORY_URL" wheelhouse/* --skip-existing --verbose || { echo "failed to twine upload" ; exit 1; }