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Revert the stream swap after the redirect to .command.out and .command.err#7300

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tcezard:fix/stderr_stdout_swap
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Revert the stream swap after the redirect to .command.out and .command.err#7300
tcezard wants to merge 1 commit into
nextflow-io:masterfrom
tcezard:fix/stderr_stdout_swap

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@tcezard

@tcezard tcezard commented Jul 3, 2026

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fixes #7299
This PR attenpt to fix the stream swap when executing .command.sh in .command.run
It does not change the similar stream swap in nxf_unstage but that might be needed as well.

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@tcezard tcezard force-pushed the fix/stderr_stdout_swap branch from ef7d60f to bf71b71 Compare July 3, 2026 12:59
…d.err

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Signed-off-by: tcezard <tcezard@ebi.ac.uk>
local start_millis=$(nxf_date)
trap 'kill $mem_proc' ERR

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This change is unnecessary, and it will break a test

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stdout and stderr are swapped by .command.run in SLURM

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