These are chat archives for dereneaton/ipyrad

20th
Dec 2018
Isaac Overcast
@isaacovercast
Dec 20 2018 16:26
@ttburk_gitlab Hi Tracy, yeah send me the emails and I'll take a look. Are you using MPI? If you're just using one compute node it should work fine, since ipcluster wouldn't need to talk on ports.
@Seth.Hamby_gitlab What version of ipyrad are you using?
@Seth.Hamby_gitlab Works for me:
rad_outfiles$ vcftools --vcf rad.vcf --remove-indv 1A_0 --recode --out wat                                                      

VCFtools - 0.1.16                                                                                                                                                         
(C) Adam Auton and Anthony Marcketta 2009                                                                                                                                 

Parameters as interpreted:                                                                                                                                                
        --vcf rad.vcf                                                                                                                                                     
        --out wat                                                                                                                                                         
        --recode                                                                                                                                                          
        --remove-indv 1A_0                                                                                                                                                

Excluding individuals in 'exclude' list                                                                                                                                   
After filtering, kept 11 out of 12 Individuals                                                                                                                            
Outputting VCF file...                                                                                                                                                    
After filtering, kept 4325 out of a possible 4325 Sites                                                                                                                   
Run Time = 0.00 seconds
rad_outfiles$ vcftools --version
VCFtools (0.1.16)
rad_outfiles$ ipyrad -v
ipyrad 0.7.28