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End-to-end MGS workflow test

Replace generate_samplesheet.sh with generate_samplesheet.py #173

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Replace generate_samplesheet.sh with generate_samplesheet.py

Replace generate_samplesheet.sh with generate_samplesheet.py #173

Run time

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Job Run time
test-run-output
6m 8s
test-index
8m 39s
test-validation
2m 1s
test-run
6m 0s
22m 48s