This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Problem connecting web in PLINK

I recently used PLINK to remove missingness in my SNPs data. I always saw message from terminal

Web-based version check ( --noweb to skip ) Recent cached web-check found...Problem connecting to web

Writing this text to log file [ HapMap_3_r3_4.log ] Analysis started: Thu May  6 20:03:31 2021

Although I used --noweb to skip connecting web, I am afraid I will use the web-based function in the future. Does anyone know if this is always happen in the PLINK? I'm using pLINK

gwas plink
• 2,612 views • link
updated by Wasim Aftab • Wasim Aftab • written by okiedokie1208 • okiedokie1208

If you want to use 1.07 version, you could use a small trick as shown below.

Add to your .bashrc file

alias plink='plink --noweb'

The hack creates an alias for the "plink" command with "--noweb" option. After that source the .bashrc file once and Voilà!

Here, I assumed that the PLINK is already added to the path variable using a command like this: export PATH="/opt/plink-1.07-x86_64:${PATH}"

• 0 views • link
written by Wasim Aftab • Wasim Aftab

1 answer

This no longer happens if you upgrade to PLINK 1.9.

• 0 views • link
written by chrchang523 chrchang523

Log in to answer this question.

More posts like this