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VCFTools - Writing 012 matrix files ... Error: Could not open temporary file.

Hi,

I'm trying to make a 012 matrix using VCFTools using these parameters:

--vcf /filepath/snp.vcf
--012
--out output_geno.vcf

but I keep receiving this error, and I'm not sure how to resolve the issue:

After filtering, kept 287 out of 287 Individuals Writing 012 matrix files ... Error: Could not open temporary file.

Any help is greatly appreciated!

snp
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updated by epipar • epipar • written by jmounger • jmounger

Do you have write permission to the current directory?

• 1 views • link
written by WouterDeCoster WouterDeCoster

1 answer

Try increasing the size of the temporary folder

ulimit -n 3000

• 0 views • link
written by epipar • epipar

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