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Fix azure rnaseq-nf test#7143

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bentsherman merged 3 commits into
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fix-e2e-test-azure
May 14, 2026
Merged

Fix azure rnaseq-nf test#7143
bentsherman merged 3 commits into
masterfrom
fix-e2e-test-azure

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@bentsherman

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rnaseq-nf was recently updated to define test input data only in config and not in the main script

However, the azure e2e test currently runs rnaseq-nf with a full config override (-C) instead of a config append (-c). As a result, the e2e fails because no input data is specified

This PR updates the azure e2e test to use -c instead of -C for rnaseq-nf so that the default project config is still used

Signed-off-by: Ben Sherman <[email protected]>
@bentsherman bentsherman requested a review from jorgee May 13, 2026 19:04
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Deploy Preview for nextflow-docs-staging canceled.

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🔨 Latest commit 9df942a
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I approved by mistake, Tests still failing there is still a missing -C with the rnaseq-nf run

Comment thread validation/azure.sh Outdated

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Fixed now. You can merge

@bentsherman bentsherman merged commit e4f9290 into master May 14, 2026
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@bentsherman bentsherman deleted the fix-e2e-test-azure branch May 14, 2026 15:50
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2 participants