python.yml 6.8 KB

123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960616263646566676869707172737475767778798081828384858687888990919293949596979899100101102103104105106107108109110111112113114115116117118119120121122123124125126127128129130131132133134135136137138139140141142143144145146147148149150151152153154155156157158159160161162163164165166
  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-18.04
  14. strategy:
  15. matrix:
  16. python-version:
  17. - 3.8
  18. steps:
  19. - uses: actions/checkout@v1
  20. - uses: actions/setup-python@v1
  21. with:
  22. python-version: ${{ matrix.python-version }}
  23. - run: pip install --upgrade pipenv==2020.8.13
  24. - run: pipenv install --python "$PYTHON_VERSION" --deploy --dev
  25. env:
  26. PYTHON_VERSION: ${{ matrix.python-version }}
  27. - run: pipenv graph
  28. - run: pipenv run black --check .
  29. tests:
  30. runs-on: ubuntu-18.04
  31. strategy:
  32. matrix:
  33. python-version:
  34. - 3.5
  35. - 3.6
  36. - 3.7
  37. - 3.8
  38. - 3.9
  39. pandas-version:
  40. - '' # locked version
  41. - 0.21.*
  42. - 0.22.*
  43. - 0.23.*
  44. - 0.24.*
  45. - 0.25.*
  46. - 1.1.* # python3.6
  47. - 1.*
  48. exclude:
  49. # https://travis-ci.org/github/fphammerle/freesurfer-stats/jobs/683777317#L208
  50. # https://github.com/pandas-dev/pandas/commit/18efcb27361478daa3118079ecb166c733691ecb#diff-2eeaed663bd0d25b7e608891384b7298R814
  51. - python-version: 3.5
  52. pandas-version: 1.*
  53. - python-version: 3.5
  54. pandas-version: 1.1.*
  55. # https://github.com/pandas-dev/pandas/commit/83807088329b2a7e6422e0d0ba460870a265d3d2#diff-60f61ab7a8d1910d86d9fda2261620314edcae5894d5aaa236b821c7256badd7R768
  56. - python-version: 3.6
  57. pandas-version: 1.*
  58. - python-version: 3.7
  59. pandas-version: 0.21.*
  60. - python-version: 3.7
  61. pandas-version: 0.22.*
  62. # > astroid.exceptions.AttributeInferenceError: '_constructor_expanddim' not found on <ClassDef.Series l.139 at 0x7f314baa6410>.
  63. # https://github.com/fphammerle/freesurfer-volume-reader/runs/1937182916
  64. - python-version: 3.7
  65. pandas-version: 1.1.*
  66. # >/tmp/pip-install-g4jx0np4/numpy/_configtest.c:6: undefined reference to `exp'
  67. # https://travis-ci.org/github/fphammerle/freesurfer-stats/jobs/683704331#L437
  68. - python-version: 3.8
  69. pandas-version: 0.21.*
  70. # https://travis-ci.org/github/fphammerle/freesurfer-stats/jobs/683704330#L437
  71. - python-version: 3.8
  72. pandas-version: 0.22.*
  73. # no python3.8 wheels for pandas v0.24.2 & v0.23.4 available
  74. # https://travis-ci.org/github/fphammerle/freesurfer-stats/builds/701952350
  75. # build takes longer than 10min
  76. # https://travis-ci.org/github/fphammerle/freesurfer-stats/jobs/702077404#L199
  77. - python-version: 3.8
  78. pandas-version: 0.23.*
  79. - python-version: 3.8
  80. pandas-version: 0.24.*
  81. # > astroid.exceptions.AttributeInferenceError: '_constructor_expanddim' not found on <ClassDef.Series l.139 at 0x7f314baa6410>.
  82. # https://github.com/fphammerle/freesurfer-volume-reader/runs/1937182916
  83. - python-version: 3.8
  84. pandas-version: 1.1.*
  85. - python-version: 3.9
  86. pandas-version: 0.21.*
  87. - python-version: 3.9
  88. pandas-version: 0.22.*
  89. - python-version: 3.9
  90. pandas-version: 0.23.*
  91. - python-version: 3.9
  92. pandas-version: 0.24.*
  93. fail-fast: false
  94. steps:
  95. - uses: actions/checkout@v1
  96. - uses: actions/setup-python@v1
  97. with:
  98. python-version: ${{ matrix.python-version }}
  99. - run: pip install --upgrade pipenv==2020.8.13
  100. - run: pipenv install --python "$PYTHON_VERSION" --deploy --dev
  101. env:
  102. PYTHON_VERSION: ${{ matrix.python-version }}
  103. # `pipenv install --selective-upgrade "pandas==$PANDAS_VERSION"` was not effective
  104. - run: '[ -z "$PANDAS_VERSION" ] || pipenv run pip install "pandas==$PANDAS_VERSION"'
  105. env:
  106. PANDAS_VERSION: ${{ matrix.pandas-version }}
  107. - run: pipenv graph
  108. - run: pipenv run pytest --cov="$(cat *.egg-info/top_level.txt)" --cov-report=term-missing --cov-fail-under=100
  109. # https://github.com/PyCQA/pylint/issues/3882
  110. - run: python3 -c 'import sys; sys.exit(sys.version_info < (3, 9))'
  111. || pipenv run pylint --load-plugins=pylint_import_requirements "$(cat *.egg-info/top_level.txt)"
  112. # https://github.com/PyCQA/pylint/issues/352
  113. # disable parse-error due to:
  114. # > tests/resources/__init__.py:1:0: F0010: error while code parsing: Unable to load file tests/resources/__init__.py:
  115. # > [Errno 2] No such file or directory: 'tests/resources/__init__.py' (parse-error)
  116. - run: python3 -c 'import sys; sys.exit(sys.version_info < (3, 9))'
  117. || pipenv run pylint --disable=parse-error tests/*
  118. - run: pipenv run mypy "$(cat *.egg-info/top_level.txt)" tests
  119. # >=2.1.0 to support GITHUB_TOKEN
  120. # COVERALLS_REPO_TOKEN required manual configuration of secret
  121. # https://github.com/TheKevJames/coveralls-python/commit/f597109b62fadaf900af79d4f08a7debee5229e2
  122. - run: pip install 'coveralls>=2.1.0,<4'
  123. - run: coveralls
  124. env:
  125. GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
  126. # https://github.com/TheKevJames/coveralls-python/issues/240#issuecomment-758336355
  127. COVERALLS_SERVICE_NAME: github
  128. test-examples: # sync with https://github.com/fphammerle/freesurfer-surface/blob/dev/.github/workflows/python.yml#L73
  129. runs-on: ubuntu-18.04
  130. strategy:
  131. matrix:
  132. python-version:
  133. - 3.5
  134. - 3.6
  135. - 3.7
  136. - 3.8
  137. - 3.9
  138. fail-fast: false
  139. defaults:
  140. run:
  141. working-directory: examples/
  142. steps:
  143. - uses: actions/checkout@v1
  144. - uses: actions/setup-python@v1
  145. with:
  146. python-version: ${{ matrix.python-version }}
  147. - run: pip install --upgrade pipenv==2020.8.13
  148. - run: pipenv install --python "$PYTHON_VERSION" --deploy --dev
  149. env:
  150. PYTHON_VERSION: ${{ matrix.python-version }}
  151. # > RuntimeError: module compiled against API version 0xe but this version of numpy is 0xd
  152. - run: python3 -c 'import sys; sys.exit(sys.version_info >= (3, 8))'
  153. || pipenv run pip install --no-deps numpy==1.20.1
  154. - run: pipenv graph
  155. # > the default behaviour is to abort conversion [...] if one of the cells throws an error
  156. - run: pipenv run jupyter nbconvert --execute --inplace *.ipynb
  157. # revert line specifying version of python interpreter
  158. - run: sudo apt-get update
  159. - run: sudo apt-get install --yes --no-install-recommends patchutils
  160. - run: git diff --unified=0 | grepdiff --output-matching=hunk '^ "version":' | patch --reverse
  161. - run: git diff --unified=0 | grepdiff --output-matching=hunk 'data:image/png;base64,' | patch --reverse
  162. - run: git diff --exit-code