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Plink (genetics) and PuTTY Link confusion in linux

Hello,

I am trying to run a gene based analysis using VEGAS using a linux terminal (ubuntu precise). The programme require plink to be installed and called accordingly. However, the computer also has PuTTY Link which is also called plink installed, and now when I run the programme, it's not calling the correct plink (the genetic version). Does anyone know how I can work around this?

Thanks,
Varun

snp software-error
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updated by Ram Ram • written by Varun • Varun

Why don't you just use the full path?

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updated by Ram Ram • written by GouthamAtla GouthamAtla

I am not familiar with VEGAS software. If this software calls plink, then there should be a line in the VEGAS or VEGAS configuration file for the default path to plink. Edit that line and add the full path to plink.

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updated by Ram Ram • written by Siva Siva

Thanks both. I renamed plink in the config file and the executable file. So it works now.

Cheers,
Varun

• 1 views • link
updated by Ram Ram • written by Varun • Varun

Renaming a binary is not a good idea. configuring it properly.

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updated by Ram Ram • written by GouthamAtla GouthamAtla

How can I install Plink in the server and how to change its name in the configuration file?

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written by forever forever

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