Skip to content

Custom dataloader registry support #4

Custom dataloader registry support

Custom dataloader registry support #4

name: test (custom dataloaders)
on:
push:
branches: [main, "[0-9]+.[0-9]+.x"]
pull_request:
schedule:
- cron: "0 10 * * *" # runs at 10:00 UTC (03:00 PST) every day
workflow_dispatch:
concurrency:
group: ${{ github.workflow }}-${{ github.ref }}
cancel-in-progress: true
jobs:
test:
runs-on: ${{ matrix.os }}
defaults:
run:
shell: bash -e {0} # -e to fail on error
strategy:
fail-fast: false
matrix:
os: [ubuntu-latest]
python: ["3.11"]
name: integration
env:
OS: ${{ matrix.os }}
PYTHON: ${{ matrix.python }}
steps:
- uses: actions/checkout@v4
- uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python }}
cache: "pip"
cache-dependency-path: "**/pyproject.toml"
- name: Install dependencies
run: |
python -m pip install --upgrade pip wheel uv
python -m uv pip install --system "scvi-tools[tests] @ ."
- name: Install Specific Branch of Repository
env:
GH_TOKEN: ${{ secrets.GH_TOKEN }}
run: |
git config --global url."https://${GH_TOKEN}:[email protected]/".insteadOf "https://github.com/"
pip install git+https://github.com/ebezzi/cellxgene-census.git@census-scvi-datamodule
- name: Run specific custom dataloader pytest
env:
MPLBACKEND: agg
PLATFORM: ${{ matrix.os }}
DISPLAY: :42
COLUMNS: 120
run: |
pytest -m custom.dataloader -v --color=yes
- uses: codecov/codecov-action@v4
with:
token: ${{ secrets.CODECOV_TOKEN }}