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How to reduce RAM usage of "herro inference"? #40

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shelkmike opened this issue Jun 12, 2024 · 2 comments
Open

How to reduce RAM usage of "herro inference"? #40

shelkmike opened this issue Jun 12, 2024 · 2 comments

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@shelkmike
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Can I reduce RAM (not VRAM) usage of the error-correction stage of HERRO by tweaking some of its parameters?
@ItokawaK
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I am also wandering this.
Inputing 110 Gb fastq and their alignments eventually exceeded RAM usage 256 GB and stopped after ~80% of the reads were done..

@pgonzale60
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Out of curiosity, are you using the scripts/create_batched_alignments.sh?
I would expect that to tackle this issue.

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@pgonzale60 @shelkmike @ItokawaK