PLINK can't find my files?

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7.5 years ago

stephanie.langevin • 0

Hi,

When I run PLINK, I always have this error message: No file (XXX.ped) exists.

However, the file exists (of course) and is located at the same place as PLINK on my computer. The software has to be in C://Windows to work so I put the files at the same place.

Any ideas why PLINK can't find the files?

Thanks!

software-error plink windows SNP • 2.5k views

ADD COMMENT • link updated 4 months ago by irene.treccani.work • 0 • written 7.5 years ago by stephanie.langevin • 0

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That seems to be an odd restriction (c:\windows part). Are you sure about that? Have you tried adding ./ (or .\ ) before input file name?

ADD REPLY • link 7.5 years ago by GenoMax 141k

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What is the full command you used? And what is the full output? Any special characters in the ped filename (e.g., spaces)?

ADD REPLY • link 7.5 years ago by dschika ▴ 320

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Try defining a function path='path to the file', and when you run Plink, type: plink --bfile $path/file --make-bed --out outputname

ADD REPLY • link 4 months ago by irene.treccani.work • 0

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