[manualpipe] Elan QC 20220104

[BioWilko]

Brief description

Elan QC stage failed due to very large BAM file (14G), removed file from ocarina.files.ls and re-ran.

PR submitted to Ocarina repo which should hopefully prevent repetition of this issue moving forward.

Pipeline exit code: 1

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Executed by: @BioWilko / @rpoplawski0 [BIRM]

• [x] I am sure this pipeline is not already running (Only relevant for non-flocked pipelines)

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• [x] Engage pipeline via mqtt from a clean dedicated mqtt environment
• [ ] ~Disable NXF cache destruction (only applicable for ENA BAM pipe)~
• [x] Check output if necessary
• [x] Check mqtt message is sent confirming completion, or send one if required (check in #tael-steam)
• [ ] ~Re-enable NXF cache destruction (if disabled)~

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• [x] Set appropriate issue flags and assignee

• [x] Manual intervention complete

• "Normal" service disrupted? ~YES~/NO

• If yes, describe impact: