-
Notifications
You must be signed in to change notification settings - Fork 12
184 lines (178 loc) · 5.42 KB
/
test.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
name: Test
on:
- push
- pull_request
jobs:
test_linux_x86:
name: Test (Linux)
runs-on: ubuntu-latest
env:
OS: Linux
strategy:
matrix:
include:
- python-version: 3.7
python-release: v3.7
python-impl: CPython
- python-version: 3.8
python-release: v3.8
python-impl: CPython
- python-version: 3.9
python-release: v3.9
python-impl: CPython
- python-version: '3.10'
python-release: 'v3.10'
python-impl: CPython
- python-version: '3.11'
python-release: 'v3.11'
python-impl: CPython
- python-version: '3.12'
python-release: 'v3.12'
python-impl: CPython
- python-version: pypy-3.7
python-release: v3.7
python-impl: PyPy
- python-version: pypy-3.8
python-release: v3.8
python-impl: PyPy
- python-version: pypy-3.9
python-release: v3.9
python-impl: PyPy
- python-version: pypy-3.10
python-release: v3.10
python-impl: PyPy
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
submodules: true
- name: Setup Python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: Show Python build environment
run: python -m sysconfig
- name: Update pip
run: python -m pip install -U pip wheel setuptools
- name: Install Python requirements
run: python -m pip install -r .github/workflows/requirements.txt
- name: Build C extension
run: pip install -e . --no-build-isolation
- name: Install test requirements
run: python -m pip install -r pyhmmer/tests/requirements.txt
- name: Test with coverage
run: python -m coverage run -m unittest pyhmmer.tests -vv
- name: Upload to Codecov
if: matrix.python-impl == 'CPython'
uses: codecov/codecov-action@v3
with:
flags: ${{ matrix.python-release }}
env_vars: OS
name: test-python-${{ matrix.python-version }}
fail_ci_if_error: false
token: ${{ secrets.CODECOV_TOKEN }}
verbose: true
# test_linux_arm64:
# name: Test (Linux, arm64)
# runs-on: ubuntu-latest
# strategy:
# matrix:
# python-tag:
# - cp310-manylinux_aarch64
# - cp311-manylinux_aarch64
# steps:
# - uses: actions/checkout@v4
# with:
# submodules: true
# - name: Set up QEMU
# id: qemu
# uses: docker/setup-qemu-action@v3
# with:
# platforms: arm64
# - name: Build manylinux wheels
# uses: pypa/cibuildwheel@v2.16.5
# env:
# CIBW_ARCHS: aarch64
# CIBW_BUILD: ${{ matrix.python-tag }}
# CIBW_BUILD_VERBOSITY: 2
# CIBW_BEFORE_BUILD: pip install cython
# CIBW_TEST_COMMAND: python -m unittest pyhmmer.tests -vv
# CIBW_TEST_REQUIRES: importlib-resources
# with:
# output-dir: dist
# - uses: actions/upload-artifact@v3
# with:
# name: wheels
# path: dist/*
test_osx_x86:
name: Test (OSX)
runs-on: macos-12
env:
OS: OSX
_PYTHON_HOST_PLATFORM: macosx-10.9-x86_64
strategy:
matrix:
include:
- python-version: 3.7
python-release: v3.7
python-impl: CPython
- python-version: 3.8
python-release: v3.8
python-impl: CPython
- python-version: 3.9
python-release: v3.9
python-impl: CPython
- python-version: '3.10'
python-release: 'v3.10'
python-impl: CPython
- python-version: '3.11'
python-release: 'v3.11'
python-impl: CPython
- python-version: '3.12'
python-release: 'v3.12'
python-impl: CPython
- python-version: pypy-3.7
python-release: v3.7
python-impl: PyPy
- python-version: pypy-3.8
python-release: v3.8
python-impl: PyPy
- python-version: pypy-3.9
python-release: v3.9
python-impl: PyPy
- python-version: pypy-3.10
python-release: v3.10
python-impl: PyPy
steps:
- name: Checkout code
uses: actions/checkout@v4
with:
submodules: true
- name: Setup Python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: Show Python build environment
run: arch -x86_64 python -m sysconfig
- name: Update pip
run: python -m pip install -U pip wheel setuptools
- name: Install Python requirements
run: python -m pip install -r .github/workflows/requirements.txt
- name: Build C extension
run: arch -x86_64 pip install -e . --no-build-isolation
- name: Install test requirements
run: python -m pip install -r pyhmmer/tests/requirements.txt
if: matrix.python-impl == 'CPython'
- name: Test with coverage
run: python -m coverage run -m unittest pyhmmer.tests -vv
- name: Upload to Codecov
uses: codecov/codecov-action@v4
if: matrix.python-impl == 'CPython'
with:
flags: ${{ matrix.python-release }}
env_vars: OS
name: test-python-${{ matrix.python-version }}
fail_ci_if_error: false
token: ${{ secrets.CODECOV_TOKEN }}
codecov_curl_args: "--globoff"
verbose: true