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Runs out of /tmp space. Needs option to specify temp dir #35

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GabeAl opened this issue Dec 31, 2022 · 1 comment
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Runs out of /tmp space. Needs option to specify temp dir #35

GabeAl opened this issue Dec 31, 2022 · 1 comment

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@GabeAl
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GabeAl commented Dec 31, 2022

On modern systems, /tmp redirects to RAM.
On a 1tb RAM node, the 500gb of RAM in /tmp is easily exhausted during the diamond run if multiple instances are running with hundreds/thousands of MAGs each.

The solution is to allow the user to specify temporary directory. If this is already possible, I don't see a flag for it.

Results are sometimes silently corrupt if the diamond blast file is truncated once /tmp is exhausted.

@chklovski
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Thanks for raising this. Implemented in release 1.0.1

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