Refactored metadata collection and fixes an issue with newly loaded datasets #9
Workflow file for this run
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| name: Test Collect Metadata Script | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| include: | |
| - series_id: GSE191067 | |
| subset_list: "" | |
| - series_id: GSE264508 | |
| subset_list: "" | |
| - series_id: GSE274955 | |
| subset_list: "" | |
| - series_id: GSE250130 | |
| subset_list: "" | |
| - series_id: E-MTAB-9221 | |
| subset_list: "" | |
| - series_id: GSE111360 | |
| subset_list: test_data/GSE111360/GSE111360.subset.list | |
| - series_id: GSE117988 | |
| subset_list: "" | |
| - series_id: GSE160513 | |
| subset_list: "" | |
| - series_id: PRJNA511433 | |
| subset_list: "" | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v3 | |
| - name: Set up environment | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y wget perl curl jq | |
| - name: Run metadata collection tests | |
| run: | | |
| chmod +x ./scripts/* | |
| chmod +x ./tests/test_metadata.sh | |
| ./tests/test_metadata.sh ${{ matrix.series_id }} ${{ matrix.subset_list }} |