update badge update fix #27
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| name: Build | |
| on: | |
| push: | |
| branches: main | |
| jobs: | |
| build-linux: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| max-parallel: 5 | |
| env: | |
| Elsevier_API: ${{ secrets.SCOPUS_API_KEY }} | |
| ncbi_api_key: ${{ secrets.NCBI_API_KEY }} | |
| steps: | |
| - name: checkout | |
| uses: actions/checkout@v4 | |
| - name: Set up Python 3.11.6 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.11.6' | |
| cache: pip | |
| - name: Add conda to system path | |
| run: | | |
| echo $CONDA/bin >> $GITHUB_PATH | |
| - name: Install dependencies | |
| run: | | |
| conda env update --file environment.yml --name base | |
| - name: Lint with flake8 | |
| run: | | |
| # stop the build if there are Python syntax errors or undefined names | |
| flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics --exclude=dev,notebooks | |
| # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide | |
| flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics --exclude=dev,notebooks | |
| - name: Test with pytest | |
| run: | | |
| cd ./docs | |
| mkdir -p ./tmp | |
| pytest --doctest-modules --maxfail=6 -s --ignore=dev,notebooks ../mass_spectrometry/ms_functions.py ../utils.py ../spectrophotometry/spec_functions.py ../database_analysis/dban_functions.py | |
| rm -rf ./tmp | |
| - name: Update badges | |
| if: github.event_name == 'push' | |
| run: | | |
| rm -rf ./docs/statics/lastupdate.svg | |
| anybadge -l 'Last Updated' -c '#49eaaf' -f ./docs/static/lastupdate.svg -v "$(date +'%B %Y')" -o | |
| git config --global user.name 'eduardotlc' | |
| git config --global user.email 'eduardotcampos@usp.br' | |
| git remote set-url origin https://x-access-token:${{ secrets.GITHUB_TOKEN }}@github.com/$GITHUB_REPOSITORY | |
| git add . | |
| git commit -a -m "build workflow automatic badges generation" | |
| git push |