MemoryError about picrust2

[gavinmdouglas]

Hi there,

What command are you running and how large are your input files?

That error means that you have insufficient memory for the object (it's 592 GB).

Cheers,

Gavin

[qbdong122]

Thank you for your reply!
The run command is :
picrust2_pipeline.py -s dna-sequences.fasta -i feature-table.biom -o picrust2_out -p 28
Given that the fasta file is 3.1 Gb in size and contains 10,131 samples, how can I run this entire pipeline in one execution? I want to avoid having to run it multiple times for different subsets of the data.”

[gavinmdouglas]

You can look into pre filtering your data to remove sequences and samples with low prevalence. Otherwise you would need to manually split up your data to reduce the memory usage unfortunately.

[qbdong122]

Thanks! I got it !