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Issue with memory and the gcsa index in toil-vg
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Entering edit mode
11 days ago
jcmouren • 0

Hello,

I’m trying to construct a graph with toil-vg but have issues with memory and the gcsa indexing.

I would like to know how the values are determined in the follow-up error : “Requesting more disk than either physically available, or enforced by --maxDisk. Requested: 139586437120, Available: 133757087744”.

Is it really simply just disk memory ? Because I know I have way more than what is requested, so if anyone could explain it to me please.

Here’s the configuration I use : gcsa-index-mem: '200G' gcsa-index-disk: '100G' gcsa-index-preemptable: False

vg vgteam toil-vg • 33 views
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Entering edit mode

I never used this tool but looking at the error you can try and set --maxDisk less than the available memory.

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