"File write failure" error

[huma rafique]

Hello everyone!

Hope everyone is doing great! I'm trying to convert bed format to tped (bed2tped) but every time I got error that is "File write failure". 

And it doesn't mean that I don't have enough space, I do! I've more than enough space in my cluster but really don't know the reason why every time I'm getting this error. I'm stuck here since the last 10 days. Tried everything that I could do but in vain!!!!

I'm gonna show you my script, my error and my log file. 

Would be Really grateful!!!!!!!

Thanks 

[Christopher Chang]

PLINK 2.0 generally provides more informative error messages than PLINK 1.9; try running this command with it.

[huma rafique]

I've downloaded plink2, but again same error. But this time I got file.tfam. And when I was trying to do with plink1.9, that time i couldn't get output .tfam. 

Here's my logfile

PLINK v2.00a6LM 64-bit Intel (18 Aug 2024)
Options in effect:
  --allow-extra-chr
  --bfile /storage/public/home/2023072010/2.historyofPak_goats/ancient_NJtree/4goat.maf0.01
  --chr-set 29
  --export transpose
  --out /storage/public/home/2023072010/2.historyofPak_goats/01.NJ//5goat.maf0.01
  --threads 16

Hostname: fnode201
Working directory: /storage/public/home/2023072010/2.historyofPak_goats/01.NJ
Start time: Sat Aug 31 15:41:12 2024

Random number seed: 1725090072
3094539 MiB RAM detected, ~3010183 available; reserving 1547269 MiB for main
workspace.
Using up to 16 threads (change this with --threads).
329 samples (0 females, 0 males, 329 ambiguous; 329 founders) loaded from
/storage/public/home/2023072010/2.historyofPak_goats/ancient_NJtree/4goat.maf0.01.fam.
Note: 2 nonstandard chromosome codes present.
563317315 variants loaded from
/storage/public/home/2023072010/2.historyofPak_goats/ancient_NJtree/4goat.maf0.01.bim.
Note: No phenotype data present.
Writing
/storage/public/home/2023072010/2.historyofPak_goats/01.NJ//5goat.maf0.01.tfam
... done.
--export tped to
/storage/public/home/2023072010/2.historyofPak_goats/01.NJ//5goat.maf0.01.tped
...
Error: File write failure: Disk quota exceeded.

End time: Sat Aug 31 15:51:47 2024
5goat.maf0.01.log (END)

[huma rafique]

With plink1.9 version I was not getting tfam file, but with plink2 version I'm not getting nosex file!

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[Christopher Chang]

Reread the end of the PLINK 2.0 error message, and look up what it means if you are not familiar.