fix: add a check for to_pdb #342
Workflow file for this run
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name: Run pytest | |
on: | |
pull_request: | |
branches: [ main, dev ] | |
env: | |
MY_REF: ${{ format('refs/heads/{0}', github.event.pull_request.head.ref) }} | |
ACTIONS_ALLOW_UNSECURE_COMMANDS: true | |
PYTHONIOENCODING: utf-8 | |
jobs: | |
test: | |
runs-on: ${{ matrix.os }} | |
strategy: | |
matrix: | |
version: ["3.8", "3.10"] | |
os: [ubuntu-latest, macos-latest] | |
steps: | |
- name: Check if relevant files have changed | |
uses: actions/github-script@0.9.0 | |
id: service-changed | |
with: | |
result-encoding: string | |
script: | | |
const result = await github.pulls.listFiles({ | |
owner: context.payload.repository.owner.login, | |
repo: context.payload.repository.name, | |
pull_number: context.payload.number, | |
per_page: 100 | |
}) | |
const serviceChanged = result.data.filter(f => f.filename.startsWith("proteinflow/")).length > 0 | |
console.log(serviceChanged) | |
return serviceChanged | |
- uses: actions/checkout@v3 | |
if: ${{ steps.service-changed.outputs.result == 'true' }} | |
with: | |
ref: ${{ env.MY_REF }} | |
fetch-depth: 0 | |
- name: Install dependencies | |
if: ${{ steps.service-changed.outputs.result == 'true' }} | |
run: | | |
conda update conda -y | |
conda create --name proteinflow -y python=${{ matrix.version }} | |
conda install -n proteinflow -c conda-forge -c bioconda mmseqs2 | |
conda run -n proteinflow python -m pip install torch --extra-index-url https://download.pytorch.org/whl/cpu | |
conda run -n proteinflow python -m pip install awscli pytest flake8 | |
conda run -n proteinflow python -m pip install numpy | |
conda run -n proteinflow python -m pip install "rcsbsearch @ git+https://github.com/sbliven/rcsbsearch@dbdfe3880cc88b0ce57163987db613d579400c8e" | |
conda run -n proteinflow python -m pip install -e . | |
- name: Test with pytest | |
if: ${{ steps.service-changed.outputs.result == 'true' }} | |
run: | | |
conda run -n proteinflow pytest tests |