new tests configurations #1
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| name: Mouse ONT R10 simulated uniform coverage | ||
| on: | ||
| workflow_dispatch: | ||
| schedule: | ||
| - cron: '0 1 * * 7' | ||
| env: | ||
| RUN_NAME: Mouse.ONT_simulated.R10.uniform_cov | ||
| LAUNCHER: ${{github.workspace}}/tests/github/run_pipeline.py | ||
| CFG_DIR: /abga/work/andreyp/ci_isoquant/data | ||
| BIN_PATH: /abga/work/andreyp/ci_isoquant/bin/ | ||
| OUTPUT_BASE: /abga/work/andreyp/ci_isoquant/output/${{github.ref_name}}/ | ||
| jobs: | ||
| launch-runner: | ||
| runs-on: | ||
| labels: [self-hosted] | ||
| name: 'Running IsoQuant and QC' | ||
| steps: | ||
| - name: 'Cleanup' | ||
| run: > | ||
| set -e && | ||
| shopt -s dotglob && | ||
| rm -rf * | ||
| - name: 'Checkout' | ||
| uses: actions/checkout@v3 | ||
| with: | ||
| fetch-depth: 1 | ||
| - name: 'IsoQuant' | ||
| if: always() | ||
| shell: bash | ||
| env: | ||
| STEP_NAME: Mouse.ONT_simulated.R10.uniform_cov | ||
| run: | | ||
| export PATH=$PATH:${{env.BIN_PATH}} | ||
| python3 ${{env.LAUNCHER}} ${{env.CFG_DIR}}/${{env.STEP_NAME}}.cfg -o ${{env.OUTPUT_BASE}} | ||
