Online help missing for Populations 1.2.31

Question

[hemr3]

Hi, I'm trying to convert my VCF files into ones that can be used with TreeMix. One of the required files for TreeMix is a population file (.pop), and I'm having some trouble creating it.

I'm using Populations 1.2.31 (http://www.bioinformatics.org/~tryphon/populations/) to try and make this .pop file. Below is the command I'm using:

populations -V /home/usr/file.vcf -M /home/usr/pops.map -O. -treemix

This is the error I get out of this command is:

Online help missing
Please visit our website :
http://www.bioinformatics.org/~tryphon/populations/

I don't know what this error means - my PC is connected to the Internet, and the correct package for Populations has been downloaded.

This is the shape of the pops.map file:

AFR:
    - LP6005441-DNA_A08
    - LP6005441-DNA_A11
      ...
NEA:
    - Vindija33.19
    - AltaiNea  
DEN:
    - DenisovaPinky
ANC: 
    - Anc

(I'm not sure whether using this file is correct or not, though). My .vcf file is in the standard format.

I'd be very grateful for any tips on this error, and any tips on the use and preparation of .vcf files for TreeMix in general.

[4galaxy77]

Are you sure you need the '.' after the -O flag?

[hemr3]

I just tried it without the '.' and it gets up the same error - there doesn't seem to be any difference