-
Notifications
You must be signed in to change notification settings - Fork 15
48 lines (43 loc) · 1.83 KB
/
linux.yml
File metadata and controls
48 lines (43 loc) · 1.83 KB
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
# This workflow will install Python dependencies, run tests and lint
# with a variety of Python versions. For more information see:
#https://docs.github.com/en/actions/automating-builds-and-tests/building-and-testing-python
name: linux_pcdl_unitests
run-name: ${{ github.actor }}::pytest pcdl library on linux os; all python3 versions.
on:
push:
branches: ["utest", "master"] # ["v3","v4"]
pull_request:
branches: ["development", "master"]
jobs:
build-linux:
runs-on: ubuntu-latest
strategy:
fail-fast: false
matrix:
#python-version: ["3.14"]
python-version: ["3.11", "3.12", "3.13"]
env:
MPLBACKEND: Agg # https://github.com/orgs/community/discussions/26434
PYTHONPATH: /home/runner/work/physicelldataloader/physicelldataloader
steps:
- uses: actions/checkout@v4
- name: set up python ${{ matrix.python-version }}
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: install dependencies
run: |
sudo apt install ffmpeg imagemagick
python -m pip install --upgrade pip
python -m pip install flake8 pytest anndata bioio bioio-ome-tiff matplotlib neuroglancer numpy pandas requests scikit-image scipy vtk
python -m pip install /home/runner/work/physicelldataloader/physicelldataloader -v
#if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
- name: lint with flake8
run: |
# stop the build if there are Python syntax errors or undefined names
flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
# exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
- name: test with pytest
run: |
pytest