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Make AWS full tests use verified S3 inputs - #105
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edmundmiller wants to merge 1 commit into
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Pin Nextflow 26.10.5 so connection-reset staging failures can retry. Use the checksum-validated private mirror for AWS tests while leaving public ENA samplesheets unchanged for other users. Migrate to the supported Seqera launch action to select the remote runtime explicitly and wait for the final workflow result. Preserve a launch-result artifact on success or failure.
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ENA staging failures have been breaking release tests. The latest AWS run hit a connection reset on Nextflow 26.04.7, which does not retry that error (nextflow#7798). An earlier run staged a full-sized but corrupted FASTQ copy.
The existing launch action cannot select the remote Nextflow version, so this migrates to the pinned
action-seqera-launchrevision and retains a launch-result artifact. The generictest_fullprofile and public ENA samplesheet are unchanged; only the nf-core AWS launch uses the mirror.The mirror is live in
eu-west-1: 12 original FASTQs, 60.67 GB, 482,526,530 matching read pairs. Complete ENA MD5, gzip, and paired-FASTQ validation passed before server-side copying; destination full-object checksums match. Contents are restricted to the nf-core AWS account. Existing cached originals were not changed or deleted.PR checklist
actionlintpass.nextflow lint .on 26.10.5 passes: no errors, existing deprecation warnings.nf-core pipelines lint— not run locally.Related data source: test-datasets#1972.