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BUG: stderr not reported #526

Merged
merged 2 commits into from
Jun 29, 2023
Merged

BUG: stderr not reported #526

merged 2 commits into from
Jun 29, 2023

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wasade
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@wasade wasade commented Jun 27, 2023

The stderr output from Mash was not being reported when an error occurred. The existing code was relying on proc.stderr however that buffer is drained during the tqdm_log for loop. This fix captures the stderr in a separate buffer, outputting its contents if an error happens.

@pchaumeil pchaumeil changed the base branch from master to staging June 29, 2023 23:04
@pchaumeil pchaumeil merged commit 95e4b08 into Ecogenomics:staging Jun 29, 2023
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Hi @wasade,
Thank you for your contribution, I will merge these changes to staging. They will appear in the next release of GTDB-Tk.

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