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Improved use of GitHub Actions + pandas warning fix #242

Improved use of GitHub Actions + pandas warning fix

Improved use of GitHub Actions + pandas warning fix #242

Workflow file for this run

# This workflow will install Python dependencies, run tests and lint with a single version of Python
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
name: Python application
on:
push:
branches: [ master ]
pull_request:
branches: [ master ]
jobs:
build:
strategy:
matrix:
os: [ubuntu-latest, macos-latest, windows-latest]
version: ["3.8", "3.9", "3.10", "3.11", "3.12", "3.13"]
runs-on: ${{ matrix.os }}
steps:
- uses: actions/checkout@v4
- name: Set up Python
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.version }}
- name: Install dependencies
run: |
python -m pip install --upgrade pip
pip install .
- name: Test base functionality tool
run: |
ena-upload-cli --help
- name: Create credentials file
run: |
echo "username: ${{ secrets.ENA_USERNAME }}" >> .secrets.yaml
echo "password: ${{ secrets.ENA_PASSWORD }}" >> .secrets.yml
- name: Test submission in --draft mode
run: |
ena-upload-cli --action add --draft --dev --center ${{ secrets.ENA_CENTER }} --data ENA_TEST1.R1.fastq.gz ENA_TEST2.R1.fastq.gz ENA_TEST2.R2.fastq.gz --checklist ERC000033 --secret .secret.yml --xlsx example_tables/ENA_excel_example_ERC000033.xlsx