Redo fixes from #40 #88
Workflow file for this run
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| # This workflow will setup and test the python code using miniconda | |
| name: Setup test publish reports | |
| on: [push, pull_request] | |
| # Allows you to run this workflow manually from the Actions tab | |
| # Sets permissions of the GITHUB_TOKEN to allow deployment to GitHub Pages | |
| permissions: | |
| contents: read | |
| pages: write | |
| id-token: write | |
| # Allow only one concurrent deployment, skipping runs queued between the run in-progress and latest queued. | |
| # However, do NOT cancel in-progress runs as we want to allow these production deployments to complete. | |
| concurrency: | |
| group: "pages" | |
| cancel-in-progress: false | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| auto-update-conda: true | |
| activate-environment: nrcat | |
| python-version: "3.10" | |
| channels: main, conda-forge | |
| allow-softlinks: true | |
| channel-priority: flexible | |
| show-channel-urls: true | |
| - run: | | |
| # Conda diagnostic | |
| echo "Echoing conda diagnostic information" | |
| conda --version | |
| conda info | |
| conda list | |
| conda config --show-sources | |
| conda config --show | |
| conda info --envs | |
| python --version | |
| pip --version | |
| pwd | |
| ls -l | |
| ###################### | |
| # Setup linters | |
| # conda install black isort -y | |
| # ################## | |
| # Setup nrcattools | |
| echo "Setting up nrcatalogtools" | |
| pip install -r requirements.txt | |
| export NRC_DIR=${PWD} | |
| echo $NRC_DIR | |
| cd ./test | |
| pwd | |
| ls | |
| echo "Downloading lalsuite-extras" | |
| # ################## | |
| # LAL extras | |
| export LAL_DATA_PATH="${PWD}/lalsuite-extra/data/lalsimulation" | |
| echo "Using LAL_DATA_PATH" | |
| echo $LAL_DATA_PATH | |
| mkdir -p $LAL_DATA_PATH | |
| cd $LAL_DATA_PATH | |
| ls | |
| ## lal extras fetch method | |
| # git lfs pull | |
| wget https://git.ligo.org/lscsoft/lalsuite-extra/-/raw/master/data/lalsimulation/SEOBNRv4ROM_v2.0.hdf5 -O SEOBNRv4ROM_v2.0.hdf5 | |
| cd $NRC_DIR | |
| pwd | |
| ls | |
| echo "Setting up waveformtools" | |
| # ###################### | |
| # Clone waveformtools | |
| cd .. | |
| git clone https://gitlab.com/vaishakp/waveformtools.git | |
| cd waveformtools | |
| pip install -r requirements.txt | |
| ls | |
| export WTOOLS_DIR=$PWD | |
| echo $WTOOLS_DIR | |
| export PYTHONPATH="$WTOOLS_DIR":$PYTHONPATH | |
| echo $PYTHONPATH | |
| #################### | |
| # Begin linting | |
| # cd $NRC_DIR | |
| # isort . | |
| # black . | |
| # flake8 . | |
| # ################# | |
| # Begin testing | |
| pip install coverage | |
| echo "Begin testing" | |
| cd $NRC_DIR/test | |
| # python -m unittest -v | |
| coverage run --source=../nrcatalogtools -m unittest discover -v | |
| coverage html | |
| python .generate_badge.py | |
| - name: Upload logs | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: logs_n_coverage | |
| path: | | |
| ./test/logs/* | |
| ./test/cov_badge.svg | |
| ./test/htmlcov | |
| cov_reports: | |
| name: Publish coverage reports | |
| needs: build | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| steps: | |
| - name: Checkout | |
| uses: actions/checkout@v3 | |
| - name: Download artefacts from build | |
| uses: actions/download-artifact@v3 | |
| with: | |
| name: logs_n_coverage | |
| - name: Diagnostics | |
| run: | | |
| ls | |
| ls ../ | |
| mv cov_badge.svg htmlcov/ | |
| cd htmlcov | |
| ls | |
| pwd | |
| - name: Setup Pages | |
| uses: actions/configure-pages@v3 | |
| - name: Upload artifact | |
| uses: actions/upload-pages-artifact@v1 | |
| with: | |
| # Upload entire repository | |
| path: '/home/runner/work/nr-catalog-tools/nr-catalog-tools/htmlcov' | |
| - name: Deploy to GitHub Pages | |
| id: deployment | |
| uses: actions/deploy-pages@v2 |