Plink - running too slow.
0
0
Entering edit mode
23 months ago

Hi,

I have been working with plink for a few weeks now. I used this tutorial on my dataset: https://choishingwan.github.io/PRS-Tutorial/plink/#required-data

It worked last week, but when trying to find the best-fit PRS (see tutorial), I had to wait for a long time, and even then it wasn't executed. So I deleted all my files that I got from the former steps in the tutorial and tried to run it again, but then I saw that the commands in the first step now also take way too long even though in the beginning it wasn't taking so much time.

Does anyone know what to do in this kind of situation? Is it plink or is it the terminal?

PLINK • 1.2k views
ADD COMMENT
0
Entering edit mode

What is the output of plink —version?

ADD REPLY
0
Entering edit mode

This is the output: PLINK v1.90b6.21 64-bit (19 Oct 2020)

ADD REPLY
0
Entering edit mode

For my project we are using PLINK v1.9, my supervisor told me we should just stay with 1.9 instead of going for the 2.0 version

ADD REPLY
0
Entering edit mode

Can you post a full .log file of an unusually slow run?

ADD REPLY

Login before adding your answer.

Traffic: 1925 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6