python.yml 5.7 KB

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  1. # sync with https://github.com/fphammerle/ical2vdir/blob/master/.github/workflows/python.yml
  2. # https://help.github.com/en/actions/reference/workflow-syntax-for-github-actions
  3. # shown in badge
  4. # https://help.github.com/en/actions/automating-your-workflow-with-github-actions/configuring-a-workflow#adding-a-workflow-status-badge-to-your-repository
  5. name: tests
  6. on:
  7. push:
  8. pull_request:
  9. schedule:
  10. - cron: '0 20 * * 5'
  11. jobs:
  12. code-format:
  13. runs-on: ubuntu-20.04
  14. strategy:
  15. matrix:
  16. python-verison: ['3.9']
  17. steps:
  18. - uses: actions/checkout@v3
  19. - uses: actions/setup-python@v3
  20. with:
  21. python-version: ${{ matrix.python-version }}
  22. - run: pip install --upgrade pipenv==2020.8.13
  23. - run: pipenv install --python "$PYTHON_VERSION" --deploy --dev
  24. env:
  25. PYTHON_VERSION: ${{ matrix.python-version }}
  26. - run: pipenv graph
  27. - run: pipenv run black --check .
  28. tests:
  29. runs-on: ubuntu-20.04
  30. strategy:
  31. matrix:
  32. python-version:
  33. - '3.7'
  34. - '3.8'
  35. - '3.9'
  36. - '3.10'
  37. pandas-version:
  38. - '' # locked version
  39. - 0.23.*
  40. - 0.24.*
  41. - 0.25.*
  42. - 1.1.* # pandas does not use semantic versioning
  43. - 1.*
  44. exclude:
  45. # > astroid.exceptions.AttributeInferenceError: '_constructor_expanddim' not found on <ClassDef.Series l.139 at 0x7f314baa6410>.
  46. # https://github.com/fphammerle/freesurfer-volume-reader/runs/1937182916
  47. - python-version: 3.7
  48. pandas-version: 1.1.*
  49. # no python3.8 wheels for pandas v0.24.2 & v0.23.4 available
  50. # https://travis-ci.org/github/fphammerle/freesurfer-stats/builds/701952350
  51. # build takes longer than 10min
  52. # https://travis-ci.org/github/fphammerle/freesurfer-stats/jobs/702077404#L199
  53. - python-version: 3.8
  54. pandas-version: 0.23.*
  55. - python-version: 3.8
  56. pandas-version: 0.24.*
  57. # > astroid.exceptions.AttributeInferenceError: '_constructor_expanddim' not found on <ClassDef.Series l.139 at 0x7f314baa6410>.
  58. # https://github.com/fphammerle/freesurfer-volume-reader/runs/1937182916
  59. - python-version: 3.8
  60. pandas-version: 1.1.*
  61. - python-version: 3.9
  62. pandas-version: 0.23.*
  63. - python-version: 3.9
  64. pandas-version: 0.24.*
  65. # > Cython-generated file 'pandas/_libs/algos.c' not found.
  66. - python-version: 3.9
  67. pandas-version: 0.25.*
  68. - python-version: '3.10'
  69. pandas-version: 0.23.*
  70. - python-version: '3.10'
  71. pandas-version: 0.24.*
  72. - python-version: '3.10'
  73. pandas-version: 0.25.*
  74. - python-version: '3.10'
  75. pandas-version: 1.1.* # building for >4min
  76. fail-fast: false
  77. steps:
  78. - uses: actions/checkout@v3
  79. - uses: actions/setup-python@v3
  80. with:
  81. python-version: ${{ matrix.python-version }}
  82. - run: pip install --upgrade pipenv==2020.8.13
  83. # by default pipenv picks the latest version in PATH
  84. - run: pipenv --python "$(which python)" install --deploy --dev
  85. # > TypeError: Cannot interpret '<attribute 'dtype' of 'numpy.generic' objects>' as a data type
  86. - run: pipenv run pip install numpy==1.19.5
  87. if: startsWith(matrix.pandas-version, '0.')
  88. # `pipenv install --selective-upgrade "pandas==$PANDAS_VERSION"` was not effective
  89. - run: '[ -z "$PANDAS_VERSION" ] || pipenv run pip install "pandas==$PANDAS_VERSION"'
  90. env:
  91. PANDAS_VERSION: ${{ matrix.pandas-version }}
  92. - run: pipenv graph
  93. - run: pipenv run pytest --cov="$(cat *.egg-info/top_level.txt)" --cov-report=term-missing --cov-fail-under=100
  94. - run: pipenv run pylint --load-plugins=pylint_import_requirements "$(cat *.egg-info/top_level.txt)"
  95. # https://github.com/PyCQA/pylint/issues/352
  96. # disable parse-error due to:
  97. # > tests/resources/__init__.py:1:0: F0010: error while code parsing: Unable to load file tests/resources/__init__.py:
  98. # > [Errno 2] No such file or directory: 'tests/resources/__init__.py' (parse-error)
  99. - run: pipenv run pylint --disable=parse-error tests/*
  100. - run: pipenv run mypy "$(cat *.egg-info/top_level.txt)" tests
  101. # >=2.1.0 to support GITHUB_TOKEN
  102. # COVERALLS_REPO_TOKEN required manual configuration of secret
  103. # https://github.com/TheKevJames/coveralls-python/commit/f597109b62fadaf900af79d4f08a7debee5229e2
  104. - run: pip install 'coveralls>=2.1.0,<4'
  105. - run: coveralls
  106. env:
  107. GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
  108. # https://github.com/TheKevJames/coveralls-python/issues/240#issuecomment-758336355
  109. COVERALLS_SERVICE_NAME: github
  110. test-examples: # sync with https://github.com/fphammerle/freesurfer-surface/blob/dev/.github/workflows/python.yml#L73
  111. runs-on: ubuntu-18.04
  112. strategy:
  113. matrix:
  114. python-version:
  115. - '3.7'
  116. - '3.8'
  117. - '3.9'
  118. - '3.10'
  119. fail-fast: false
  120. defaults:
  121. run:
  122. working-directory: examples/
  123. steps:
  124. - uses: actions/checkout@v3
  125. - uses: actions/setup-python@v3
  126. with:
  127. python-version: ${{ matrix.python-version }}
  128. - run: pip install --upgrade pipenv==2020.8.13
  129. - run: pipenv --python "$(which python)" install --deploy --dev
  130. - run: pipenv graph
  131. # > the default behaviour is to abort conversion [...] if one of the cells throws an error
  132. - run: pipenv run jupyter nbconvert --execute --inplace *.ipynb
  133. # revert line specifying version of python interpreter
  134. - run: sudo apt-get update
  135. - run: sudo apt-get install --yes --no-install-recommends patchutils
  136. - run: >-
  137. git diff --unified=0
  138. | grepdiff --output-matching=hunk '^\( "version":\| "execution": {\| "<img src=\\"data:image/png;base64,\)'
  139. | patch --reverse
  140. - run: git diff --exit-code