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I will write Continuous Integration (CI) tests that will run a workflow and check its output upon being pushed to GitHub.
GitHub Actions will be used due to its convenience.
- Setup unit tests: Write a script to compare the (know) test dataset output to the test dataset output from the pipeline run.
- Generate test data and run with pipeline: So the tests run fast, I can download fastqs from SRA and randomly subset them.
- Write Actions Workflow in
.github/workflows/continuous_integration.yml
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